Medical Research Articles Published in January 2013

With a Free Docphin Account, you create a custom list of medical research journal sources that are easy to navigate, search our extensive databse of articles, save and organize your articles into folders, set up alerts to be notificed of research articles that match your interests ... and much more.

Login or Register
01/01/2013
Evolutionary dynamics of copy number variation in pig genomes in the context of adaptation and domestication. (PubMedID: 23829399) BMC genomics
01/01/2013
Genome sequencing and comparative genomics of honey bee microsporidia, Nosema apis reveal novel insights into host-parasite interactions. (PubMedID: 23829473) BMC genomics
01/01/2013
Genomics of sablefish (Anoplopoma fimbria): expressed genes, mitochondrial phylogeny, linkage map and identification of a putative sex gene. (PubMedID: 23829495) BMC genomics
01/01/2013
Transcriptome analysis of porcine M. semimembranosus divergent in intramuscular fat as a consequence of dietary protein restriction. (PubMedID: 23829541) BMC genomics
01/01/2013
Alpha tubulin genes from Leishmania braziliensis: genomic organization, gene structure and insights on their expression. (PubMedID: 23829570) BMC genomics
01/01/2013
Identification of both copy number variation-type and constant-type core elements in a large segmental duplication region of the mouse genome. (PubMedID: 23834397) BMC genomics
01/01/2013
Impact of heat shock transcription factor 1 on global gene expression profiles in cells which induce either cytoprotective or pro-apoptotic response following hyperthermia. (PubMedID: 23834426) BMC genomics
01/01/2013
Evolutionary origins, molecular cloning and expression of carotenoid hydroxylases in eukaryotic photosynthetic algae. (PubMedID: 23834441) BMC genomics
01/01/2013
The identification of 14 new genes for meat quality traits in chicken using a genome-wide association study. (PubMedID: 23834466) BMC genomics
01/01/2013
Global Rsh-dependent transcription profile of Brucella suis during stringent response unravels adaptation to nutrient starvation and cross-talk with other stress responses. (PubMedID: 23834488) BMC genomics
01/01/2013
Transcriptional profiling of sweetpotato (Ipomoea batatas) roots indicates down-regulation of lignin biosynthesis and up-regulation of starch biosynthesis at an early stage of storage root formation. (PubMedID: 23834507) BMC genomics
01/01/2013
A high-resolution cucumber cytogenetic map integrated with the genome assembly. (PubMedID: 23834562) BMC genomics
01/01/2013
Cytosine methylation is a conserved epigenetic feature found throughout the phylum Platyhelminthes. (PubMedID: 23837670) BMC genomics
01/01/2013
KONAGAbase: a genomic and transcriptomic database for the diamondback moth, Plutella xylostella. (PubMedID: 23837716) BMC genomics
01/01/2013
Assessing De Novo transcriptome assembly metrics for consistency and utility. (PubMedID: 23837739) BMC genomics
01/01/2013
Multiplexed Illumina sequencing libraries from picogram quantities of DNA. (PubMedID: 23837789) BMC genomics
01/01/2013
Genetic basis for phenotypic differences between different Toxoplasma gondii type I strains. (PubMedID: 23837824) BMC genomics
01/01/2013
Variant discovery in targeted resequencing using whole genome amplified DNA. (PubMedID: 23837845) BMC genomics
01/01/2013
Methylation levels at IGF2 and GNAS DMRs in infants born to preeclamptic pregnancies. (PubMedID: 23844573) BMC genomics
01/01/2013
Coexpression analysis of large cancer datasets provides insight into the cellular phenotypes of the tumour microenvironment. (PubMedID: 23845084) BMC genomics
01/01/2013
Analysis and annotation of the hexaploid oat seed transcriptome. (PubMedID: 23845136) BMC genomics
01/01/2013
MicroRNAome profiling in benign and malignant neurofibromatosis type 1-associated nerve sheath tumors: evidences of PTEN pathway alterations in early NF1 tumorigenesis. (PubMedID: 23848554) BMC genomics
01/01/2013
Contrasted evolutionary constraints on secreted and non-secreted proteomes of selected Actinobacteria. (PubMedID: 23848577) BMC genomics
01/01/2013
A protein domain-centric approach for the comparative analysis of human and yeast phenotypically relevant mutations. (PubMedID: 23819456) BMC genomics
01/01/2013
WS-SNPs&GO: a web server for predicting the deleterious effect of human protein variants using functional annotation. (PubMedID: 23819482) BMC genomics
01/01/2013
Assessment of computational methods for predicting the effects of missense mutations in human cancers. (PubMedID: 23819521) BMC genomics
01/01/2013
Revealing selection in cancer using the predicted functional impact of cancer mutations. Application to nomination of cancer drivers. (PubMedID: 23819556) BMC genomics
01/01/2013
Multiscale modeling of the causal functional roles of nsSNPs in a genome-wide association study: application to hypoxia. (PubMedID: 23819581) BMC genomics
01/01/2013
Thoughts from SNP-SIG 2012: future challenges in the annotation of genetic variations. (PubMedID: 23819751) BMC genomics
01/01/2013
GWIS--model-free, fast and exhaustive search for epistatic interactions in case-control GWAS. (PubMedID: 23819779) BMC genomics
01/01/2013
Pathway analysis of genome-wide data improves warfarin dose prediction. (PubMedID: 23819817) BMC genomics
01/01/2013
Collective judgment predicts disease-associated single nucleotide variants. (PubMedID: 23819846) BMC genomics
01/01/2013
Identifying Mendelian disease genes with the variant effect scoring tool. (PubMedID: 23819870) BMC genomics
01/01/2013
The SAAP pipeline and database: tools to analyze the impact and predict the pathogenicity of mutations. (PubMedID: 23819919) BMC genomics
01/01/2013
Variable promoter methylation contributes to differential expression of key genes in human placenta-derived venous and arterial endothelial cells. (PubMedID: 23855827) BMC genomics
01/01/2013
Web-based visual analysis for high-throughput genomics. (PubMedID: 23758618) BMC genomics
01/01/2013
Alternative splicing tends to avoid partial removals of protein-protein interaction sites. (PubMedID: 23758645) BMC genomics
01/01/2013
Transcriptome based identification of mouse cumulus cell markers that predict the developmental competence of their enclosed antral oocytes. (PubMedID: 23758669) BMC genomics
01/01/2013
Expression profiling of genes regulated by Fra-1/AP-1 transcription factor during bleomycin-induced pulmonary fibrosis. (PubMedID: 23758685) BMC genomics
01/01/2013
Detection of selective sweeps in cattle using genome-wide SNP data. (PubMedID: 23758707) BMC genomics
01/01/2013
Phenotypic, genomic, and transcriptional characterization of Streptococcus pneumoniae interacting with human pharyngeal cells. (PubMedID: 23758733) BMC genomics
01/01/2013
Genomic basis of ecological niche divergence among cryptic sister species of non-biting midges. (PubMedID: 23758757) BMC genomics
01/01/2013
Evolution of REP diversity: a comparative study. (PubMedID: 23758774) BMC genomics
01/01/2013
ATR-FTIR spectroscopy reveals genomic loci regulating the tissue response in high fat diet fed BXD recombinant inbred mouse strains. (PubMedID: 23758785) BMC genomics
01/01/2013
Comparative genomic analysis of catfish linkage group 8 reveals two homologous chromosomes in zebrafish and other teleosts with extensive inter-chromosomal rearrangements. (PubMedID: 23758806) BMC genomics
01/01/2013
An integrated genetic linkage map for white clover (Trifolium repens L.) with alignment to Medicago. (PubMedID: 23758831) BMC genomics
01/01/2013
Skin transcriptome profiles associated with coat color in sheep. (PubMedID: 23758853) BMC genomics
01/01/2013
Pyrosequencing analysis of the human microbiota of healthy Chinese undergraduates. (PubMedID: 23758874) BMC genomics
01/01/2013
Archaeal nucleosome positioning in vivo and in vitro is directed by primary sequence motifs. (PubMedID: 23758892) BMC genomics
01/01/2013
Identification and analysis of MKK and MPK gene families in canola (Brassica napus L.). (PubMedID: 23758924) BMC genomics
01/01/2013
Novel genomic approaches unravel genetic architecture of complex traits in apple. (PubMedID: 23758946) BMC genomics
01/01/2013
The genesis of an exceptionally lethal venom in the timber rattlesnake (Crotalus horridus) revealed through comparative venom-gland transcriptomics. (PubMedID: 23758969) BMC genomics
01/01/2013
A genome-wide integrative study of microRNAs in human liver. (PubMedID: 23758991) BMC genomics
01/01/2013
Transcriptome analysis reveals unique C4-like photosynthesis and oil body formation in an arachidonic acid-rich microalga Myrmecia incisa Reisigl H4301. (PubMedID: 23759028) BMC genomics
01/01/2013
Large scale variation in DNA copy number in chicken breeds. (PubMedID: 23763846) BMC genomics
01/01/2013
A unique nucleosome arrangement, maintained actively by chromatin remodelers facilitates transcription of yeast tRNA genes. (PubMedID: 23767421) BMC genomics
01/01/2013
Transcript profiling by microarray and marker analysis of the short cotton (Gossypium hirsutum L.) fiber mutant Ligon lintless-1 (Li1). (PubMedID: 23767687) BMC genomics
01/01/2013
The acute transcriptional response of the coral Acropora millepora to immune challenge: expression of GiMAP/IAN genes links the innate immune responses of corals with those of mammals and plants. (PubMedID: 23768317) BMC genomics
01/01/2013
The characteristics and expression profiles of the mitochondrial genome for the Mediterranean species of the Bemisia tabaci complex. (PubMedID: 23768425) BMC genomics
01/01/2013
Genetic heterogeneity revealed by sequence analysis of Mycobacterium tuberculosis isolates from extra-pulmonary tuberculosis patients. (PubMedID: 23773324) BMC genomics
01/01/2013
Cubilin expression is monoallelic and epigenetically augmented via PPARs. (PubMedID: 23773363) BMC genomics
01/01/2013
Combined methylation mapping of 5mC and 5hmC during early embryonic stages in bovine. (PubMedID: 23773395) BMC genomics
01/01/2013
Transcriptome sequencing and de novo annotation of the critically endangered Adriatic sturgeon. (PubMedID: 23773438) BMC genomics
01/01/2013
The complete mitochondrial genome of Solemya velum (Mollusca: Bivalvia) and its relationships with conchifera. (PubMedID: 23777315) BMC genomics
01/01/2013
Phage cluster relationships identified through single gene analysis. (PubMedID: 23777341) BMC genomics
01/01/2013
Comparative transcriptome analysis of microsclerotia development in Nomuraea rileyi. (PubMedID: 23777366) BMC genomics
01/01/2013
Comparative transcriptome analysis of obligately asexual and cyclically sexual rotifers reveals genes with putative functions in sexual reproduction, dormancy, and asexual egg production. (PubMedID: 23782598) BMC genomics
01/01/2013
Global transcriptome profiles of Camellia sinensis during cold acclimation. (PubMedID: 23799877) BMC genomics
01/01/2013
Intraclonal genome diversity of Pseudomonas aeruginosa clones CHA and TB. (PubMedID: 23799896) BMC genomics
01/01/2013
The complete mitochondrial genomes of two rice planthoppers, Nilaparvata lugens and Laodelphax striatellus: conserved genome rearrangement in Delphacidae and discovery of new characteristics of atp8 and tRNA genes. (PubMedID: 23799924) BMC genomics
01/01/2013
Ambushing the Ambush Hypothesis: predicting and evaluating off-frame codon frequencies in prokaryotic genomes. (PubMedID: 23799949) BMC genomics
01/01/2013
Beyond classification: gene-family phylogenies from shotgun metagenomic reads enable accurate community analysis. (PubMedID: 23799973) BMC genomics
01/01/2013
A study on the distribution of 37 well conserved families of C2H2 zinc finger genes in eukaryotes. (PubMedID: 23800006) BMC genomics
01/01/2013
Laser microdissection coupled with RNA-seq analysis of porcine enterocytes infected with an obligate intracellular pathogen (Lawsonia intracellularis). (PubMedID: 23800029) BMC genomics
01/01/2013
Mapping IS6110 in high-copy number Mycobacterium tuberculosis strains shows specific insertion points in the Beijing genotype. (PubMedID: 23800083) BMC genomics
01/01/2013
Mobilization of lipids and fortification of cell wall and cuticle are important in host defense against Hessian fly. (PubMedID: 23800119) BMC genomics
01/01/2013
Hypothalamic and amygdalar cell lines differ markedly in mitochondrial rather than nuclear encoded gene expression. (PubMedID: 23800343) BMC genomics
01/01/2013
The complete mitochondrial genomes of three parasitic nematodes of birds: a unique gene order and insights into nematode phylogeny. (PubMedID: 23800363) BMC genomics
01/01/2013
Genome-wide association mapping of frost tolerance in barley (Hordeum vulgare L.). (PubMedID: 23802597) BMC genomics
01/01/2013
Rainbow: a tool for large-scale whole-genome sequencing data analysis using cloud computing. (PubMedID: 23802613) BMC genomics
01/01/2013
Early transcriptional responses of internalization defective Brucella abortus mutants in professional phagocytes, RAW 264.7. (PubMedID: 23802650) BMC genomics
01/01/2013
Variant surface antigens of malaria parasites: functional and evolutionary insights from comparative gene family classification and analysis. (PubMedID: 23805789) BMC genomics
01/01/2013
Contribution of nucleosome binding preferences and co-occurring DNA sequences to transcription factor binding. (PubMedID: 23805837) BMC genomics
01/01/2013
The duration of gastrin treatment affects global gene expression and molecular responses involved in ER stress and anti-apoptosis. (PubMedID: 23805861) BMC genomics
01/01/2013
Genetic variability of mutans streptococci revealed by wide whole-genome sequencing. (PubMedID: 23805886) BMC genomics
01/01/2013
Identification of thyroid hormone receptor binding sites in developing mouse cerebellum. (PubMedID: 23701648) BMC genomics
01/01/2013
Genome-scale transcriptional analyses of first-generation interspecific sunflower hybrids reveals broad regulatory compatibility. (PubMedID: 23701699) BMC genomics
01/01/2013
An integrative "omics" approach identifies new candidate genes to impact aroma volatiles in peach fruit. (PubMedID: 23701715) BMC genomics
01/01/2013
Genomic and expression analysis of the flax (Linum usitatissimum) family of glycosyl hydrolase 35 genes. (PubMedID: 23701735) BMC genomics
01/01/2013
Insights into organ-specific pathogen defense responses in plants: RNA-seq analysis of potato tuber-Phytophthora infestans interactions. (PubMedID: 23702331) BMC genomics
01/01/2013
RNA-seq analysis of single bovine blastocysts. (PubMedID: 23705625) BMC genomics
01/01/2013
Identification of miRNAs associated with sexual maturity in chicken ovary by Illumina small RNA deep sequencing. (PubMedID: 23705682) BMC genomics
01/01/2013
Comparative analysis of 4C-Seq data generated from enzyme-based and sonication-based methods. (PubMedID: 23705979) BMC genomics
01/01/2013
Unsupervised genome-wide recognition of local relationship patterns. (PubMedID: 23706020) BMC genomics
01/01/2013
Behavioral and neurogenomic transcriptome changes in wild-derived zebrafish with fluoxetine treatment. (PubMedID: 23706039) BMC genomics
01/01/2013
NEXT-peak: a normal-exponential two-peak model for peak-calling in ChIP-seq data. (PubMedID: 23706083) BMC genomics
01/01/2013
Transcription analysis of the porcine alveolar macrophage response to porcine circovirus type 2. (PubMedID: 23711280) BMC genomics
01/01/2013
Tomato breeding in the genomics era: insights from a SNP array. (PubMedID: 23711327) BMC genomics
01/01/2013
Genomic analysis of the native European Solanum species, S. dulcamara. (PubMedID: 23713999) BMC genomics
01/01/2013
Efficient high-throughput sequencing of a laser microdissected chromosome arm. (PubMedID: 23714049) BMC genomics
01/01/2013
Phase-defined complete sequencing of the HLA genes by next-generation sequencing. (PubMedID: 23714642) BMC genomics
01/01/2013
The developing xylem transcriptome and genome-wide analysis of alternative splicing in Populus trichocarpa (black cottonwood) populations. (PubMedID: 23718132) BMC genomics
01/01/2013
Quantitative trait loci in hop (Humulus lupulus L.) reveal complex genetic architecture underlying variation in sex, yield and cone chemistry. (PubMedID: 23718194) BMC genomics
01/01/2013
The venus kinase receptor (VKR) family: structure and evolution. (PubMedID: 23721482) BMC genomics
01/01/2013
Sleep is not just for the brain: transcriptional responses to sleep in peripheral tissues. (PubMedID: 23721503) BMC genomics
01/01/2013
The genome sequencing of an albino Western lowland gorilla reveals inbreeding in the wild. (PubMedID: 23721540) BMC genomics
01/01/2013
Pan-genome analysis of the emerging foodborne pathogen Cronobacter spp. suggests a species-level bidirectional divergence driven by niche adaptation. (PubMedID: 23724777) BMC genomics
01/01/2013
Sensitive and specific detection of mosaic chromosomal abnormalities using the Parent-of-Origin-based Detection (POD) method. (PubMedID: 23724825) BMC genomics
01/01/2013
The genomic architecture and association genetics of adaptive characters using a candidate SNP approach in boreal black spruce. (PubMedID: 23724860) BMC genomics
01/01/2013
Genetic association of OPR genes with resistance to Hessian fly in hexaploid wheat. (PubMedID: 23724909) BMC genomics
01/01/2013
Microarray and deep sequencing cross-platform analysis of the mirRNome and isomiR variation in response to epidermal growth factor. (PubMedID: 23724959) BMC genomics
01/01/2013
Distinct transcriptome profiles identified in normal human bronchial epithelial cells after exposure to ?-rays and different elemental particles of high Z and energy. (PubMedID: 23724988) BMC genomics
01/01/2013
The genome and transcriptome of the pine saprophyte Ophiostoma piceae, and a comparison with the bark beetle-associated pine pathogen Grosmannia clavigera. (PubMedID: 23725015) BMC genomics
01/01/2013
Actinobacillus pleuropneumoniae genes expression in biofilms cultured under static conditions and in a drip-flow apparatus. (PubMedID: 23725589) BMC genomics
01/01/2013
Comparative genomics of Salmonella enterica serovars Derby and Mbandaka, two prevalent serovars associated with different livestock species in the UK. (PubMedID: 23725633) BMC genomics
01/01/2013
Drosophila GAGA factor polyglutamine domains exhibit prion-like behavior. (PubMedID: 23731888) BMC genomics
01/01/2013
RNA-seq analysis reveals extensive transcriptional plasticity to temperature stress in a freshwater fish species. (PubMedID: 23738713) BMC genomics
01/01/2013
Time-dependent changes in gene expression induced by secreted amyloid precursor protein-alpha in the rat hippocampus. (PubMedID: 23742273) BMC genomics
01/01/2013
Insight into the specific virulence related genes and toxin-antitoxin virulent pathogenicity islands in swine streptococcosis pathogen Streptococcus equi ssp. zooepidemicus strain ATCC35246. (PubMedID: 23742619) BMC genomics
01/01/2013
Transcriptional adaptation of pneumococci and human pharyngeal cells in the presence of a virus infection. (PubMedID: 23742656) BMC genomics
01/01/2013
Correction of unexpected distributions of P values from analysis of whole genome arrays by rectifying violation of statistical assumptions. (PubMedID: 23496791) BMC genomics
01/01/2013
Efficient recovery of proteins from multiple source samples after TRIzol(®) or TRIzol(®)LS RNA extraction and long-term storage. (PubMedID: 23496794) BMC genomics
01/01/2013
Sequencing and annotation of the Ophiostoma ulmi genome. (PubMedID: 23496816) BMC genomics
01/01/2013
Distinct angiogenesis roles and surface markers of early and late endothelial progenitor cells revealed by functional group analyses. (PubMedID: 23496821) BMC genomics
01/01/2013
DNA damage activates a complex transcriptional response in murine lymphocytes that includes both physiological and cancer-predisposition programs. (PubMedID: 23496831) BMC genomics
01/01/2013
Global proteomic analysis of the oocyst/sporozoite of Toxoplasma gondii reveals commitment to a host-independent lifestyle. (PubMedID: 23496850) BMC genomics
01/01/2013
Genome-wide analysis of macrosatellite repeat copy number variation in worldwide populations: evidence for differences and commonalities in size distributions and size restrictions. (PubMedID: 23496858) BMC genomics
01/01/2013
Comparative genomics and functional study of lipid metabolic genes in Caenorhabditis elegans. (PubMedID: 23496871) BMC genomics
01/01/2013
Biclustering for the comprehensive search of correlated gene expression patterns using clustered seed expansion. (PubMedID: 23496895) BMC genomics
01/01/2013
Differential miRNA expression profiles in proliferating or differentiated keratinocytes in response to gamma irradiation. (PubMedID: 23496899) BMC genomics
01/01/2013
Gene rearrangements in hormone receptor negative breast cancers revealed by mate pair sequencing. (PubMedID: 23496902) BMC genomics
01/01/2013
Comparative analysis of protein-protein interactions in the defense response of rice and wheat. (PubMedID: 23496930) BMC genomics
01/01/2013
The transcript catalogue of the short-lived fish Nothobranchius furzeri provides insights into age-dependent changes of mRNA levels. (PubMedID: 23496936) BMC genomics
01/01/2013
The mutation rate of mycobacterial repetitive unit loci in strains of M. tuberculosis from cynomolgus macaque infection. (PubMedID: 23496945) BMC genomics
01/01/2013
A comparison across non-model animals suggests an optimal sequencing depth for de novo transcriptome assembly. (PubMedID: 23496952) BMC genomics
01/01/2013
Comparative genomics of parasitic silkworm microsporidia reveal an association between genome expansion and host adaptation. (PubMedID: 23496955) BMC genomics
01/01/2013
De-novo assembly and characterization of the transcriptome of Metschnikowia fructicola reveals differences in gene expression following interaction with Penicillium digitatum and grapefruit peel. (PubMedID: 23496978) BMC genomics
01/01/2013
Deep sequencing and genome-wide analysis reveals the expansion of MicroRNA genes in the gall midge Mayetiola destructor. (PubMedID: 23496979) BMC genomics
01/01/2013
Transcriptome analysis of pigeon milk production - role of cornification and triglyceride synthesis genes. (PubMedID: 23497009) BMC genomics
01/01/2013
Comparison of the global gene expression of choroid plexus and meninges and associated vasculature under control conditions and after pronounced hyperthermia or amphetamine toxicity. (PubMedID: 23497014) BMC genomics
01/01/2013
Dissecting structural and nucleotide genome-wide variation in inbred Iberian pigs. (PubMedID: 23497037) BMC genomics
01/01/2013
Characterization of expressed sequence tags from developing fibers of Gossypium barbadense and evaluation of insertion-deletion variation in tetraploid cultivated cotton species. (PubMedID: 23497047) BMC genomics
01/01/2013
Transcriptomics of morphological color change in polychromatic Midas cichlids. (PubMedID: 23497064) BMC genomics
01/01/2013
A kinetic model of the evolution of a protein interaction network. (PubMedID: 23497092) BMC genomics
01/01/2013
Determination of dosage compensation of the mammalian X chromosome by RNA-seq is dependent on analytical approach. (PubMedID: 23497106) BMC genomics
01/01/2013
Gene expression profiling of the hyperplastic growth zones of the late trout embryo myotome using laser capture microdissection and microarray analysis. (PubMedID: 23497127) BMC genomics
01/01/2013
Genetic dissection of growth traits in a Chinese indigenous × commercial broiler chicken cross. (PubMedID: 23497136) BMC genomics
01/01/2013
Integrated analysis of cytochrome P450 gene superfamily in the red flour beetle, Tribolium castaneum. (PubMedID: 23497158) BMC genomics
01/01/2013
Multigenic nature of the mouse pulmonary adenoma progression 1 locus. (PubMedID: 23497166) BMC genomics
01/01/2013
Transcriptional analysis of genes involved in nodulation in soybean roots inoculated with Bradyrhizobium japonicum strain CPAC 15. (PubMedID: 23497193) BMC genomics
01/01/2013
New insights on the biology of swine respiratory tract mycoplasmas from a comparative genome analysis. (PubMedID: 23497205) BMC genomics
01/01/2013
Population-genomic variation within RNA viruses of the Western honey bee, Apis mellifera, inferred from deep sequencing. (PubMedID: 23497218) BMC genomics
01/01/2013
High-utility conserved avian microsatellite markers enable parentage and population studies across a wide range of species. (PubMedID: 23497230) BMC genomics
01/01/2013
Integrated metabolomics and genomics analysis provides new insights into the fiber elongation process in Ligon lintless-2 mutant cotton (Gossypium hirsutum L.). (PubMedID: 23497242) BMC genomics
01/01/2013
Identification of differentially expressed genes from Trichoderma harzianum during growth on cell wall of Fusarium solani as a tool for biotechnological application. (PubMedID: 23497274) BMC genomics
01/01/2013
Global mapping of transcription start sites and promoter motifs in the symbiotic a-proteobacterium Sinorhizobium meliloti 1021. (PubMedID: 23497287) BMC genomics
01/01/2013
Characterization and differential expression of microRNAs in the ovaries of pregnant and non-pregnant goats (Capra hircus). (PubMedID: 23497306) BMC genomics
01/01/2013
Deep sequencing for de novo construction of a marine fish (Sparus aurata) transcriptome database with a large coverage of protein-coding transcripts. (PubMedID: 23497320) BMC genomics
01/01/2013
Towards defining the chloroviruses: a genomic journey through a genus of large DNA viruses. (PubMedID: 23497343) BMC genomics
01/01/2013
miRConnect 2.0: identification of oncogenic, antagonistic miRNA families in three human cancers. (PubMedID: 23497354) BMC genomics
01/01/2013
Pearl millet [Pennisetum glaucum (L.) R. Br.] consensus linkage map constructed using four RIL mapping populations and newly developed EST-SSRs. (PubMedID: 23497368) BMC genomics
01/01/2013
A combined strategy involving Sanger and 454 pyrosequencing increases genomic resources to aid in the management of reproduction, disease control and genetic selection in the turbot (Scophthalmus maximus). (PubMedID: 23497389) BMC genomics
01/01/2013
The genome- and transcriptome-wide analysis of innate immunity in the brown planthopper, Nilaparvata lugens. (PubMedID: 23497397) BMC genomics
01/01/2013
Transcriptional analysis of the three Nlrp1 paralogs in mice. (PubMedID: 23506131) BMC genomics
01/01/2013
The protein translocation systems in plants - composition and variability on the example of Solanum lycopersicum. (PubMedID: 23506162) BMC genomics
01/01/2013
A systems-based approach to analyse the host response in murine lung macrophages challenged with respiratory syncytial virus. (PubMedID: 23506210) BMC genomics
01/01/2013
Multiphasic analysis of whole exome sequencing data identifies a novel mutation of ACTG1 in a nonsyndromic hearing loss family. (PubMedID: 23506231) BMC genomics
01/01/2013
Ancient orphan crop joins modern era: gene-based SNP discovery and mapping in lentil. (PubMedID: 23506258) BMC genomics
01/01/2013
Dynamic regulation of epigenomic landscapes during hematopoiesis. (PubMedID: 23510235) BMC genomics
01/01/2013
Functional effect of mir-27b on myostatin expression: a relationship in Piedmontese cattle with double-muscled phenotype. (PubMedID: 23510267) BMC genomics
01/01/2013
5'-Serial Analysis of Gene Expression studies reveal a transcriptomic switch during fruiting body development in Coprinopsis cinerea. (PubMedID: 23514374) BMC genomics
01/01/2013
Structured association analysis leads to insight into Saccharomyces cerevisiae gene regulation by finding multiple contributing eQTL hotspots associated with functional gene modules. (PubMedID: 23514438) BMC genomics
01/01/2013
Transcriptome-based discovery of pathways and genes related to resistance against Fusarium head blight in wheat landrace Wangshuibai. (PubMedID: 23514540) BMC genomics
01/01/2013
Antennal transcriptome analysis of the chemosensory gene families in the tree killing bark beetles, Ips typographus and Dendroctonus ponderosae (Coleoptera: Curculionidae: Scolytinae). (PubMedID: 23517120) BMC genomics
01/01/2013
Intron retention and transcript chimerism conserved across mammals: Ly6g5b and Csnk2b-Ly6g5b as examples. (PubMedID: 23521802) BMC genomics
01/01/2013
Comparative genome analysis of Streptococcus infantarius subsp. infantarius CJ18, an African fermented camel milk isolate with adaptations to dairy environment. (PubMedID: 23521820) BMC genomics
01/01/2013
Xylem transcription profiles indicate potential metabolic responses for economically relevant characteristics of Eucalyptus species. (PubMedID: 23521840) BMC genomics
01/01/2013
Patterns and evolution of ACGT repeat cis-element landscape across four plant genomes. (PubMedID: 23530833) BMC genomics
01/01/2013
RNAseq versus genome-predicted transcriptomes: a large population of novel transcripts identified in an Illumina-454 Hydra transcriptome. (PubMedID: 23530871) BMC genomics
01/01/2013
Genes associated with the cis-regulatory functions of intragenic LINE-1 elements. (PubMedID: 23530910) BMC genomics
01/01/2013
Prediction of constitutive A-to-I editing sites from human transcriptomes in the absence of genomic sequences. (PubMedID: 23537002) BMC genomics
01/01/2013
Transcriptome analysis of the parasite Encephalitozoon cuniculi: an in-depth examination of pre-mRNA splicing in a reduced eukaryote. (PubMedID: 23537046) BMC genomics
01/01/2013
Construction of a plant-transformation-competent BIBAC library and genome sequence analysis of polyploid Upland cotton (Gossypium hirsutum L.). (PubMedID: 23537070) BMC genomics
01/01/2013
MGcV: the microbial genomic context viewer for comparative genome analysis. (PubMedID: 23547764) BMC genomics
01/01/2013
Genome-wide co-expression analysis predicts protein kinases as important regulators of phosphate deficiency-induced root hair remodeling in Arabidopsis. (PubMedID: 23547783) BMC genomics
01/01/2013
Genome sequencing of bacteria: sequencing, de novo assembly and rapid analysis using open source tools. (PubMedID: 23547799) BMC genomics
01/01/2013
Species and condition specific adaptation of the transcriptional landscapes in Candida albicans and Candida dubliniensis. (PubMedID: 23547856) BMC genomics
01/01/2013
RegTransBase--a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes. (PubMedID: 23547897) BMC genomics
01/01/2013
RNA sequencing reveals small RNAs differentially expressed between incipient Japanese threespine sticklebacks. (PubMedID: 23547919) BMC genomics
01/01/2013
TRACER: a resource to study the regulatory architecture of the mouse genome. (PubMedID: 23547943) BMC genomics
01/01/2013
CAMTA 1 regulates drought responses in Arabidopsis thaliana. (PubMedID: 23547968) BMC genomics
01/01/2013
Identification of molecular processes needed for vascular formation through transcriptome analysis of different vascular systems. (PubMedID: 23548001) BMC genomics
01/01/2013
Extensive circadian and light regulation of the transcriptome in the malaria mosquito Anopheles gambiae. (PubMedID: 23552056) BMC genomics
01/01/2013
Isolation and expression analysis of cDNAs that are associated with alternate bearing in Olea europaea L. cv. Ayvalik. (PubMedID: 23552171) BMC genomics
01/01/2013
Pig immune response to general stimulus and to porcine reproductive and respiratory syndrome virus infection: a meta-analysis approach. (PubMedID: 23552196) BMC genomics
01/01/2013
Rapid, scalable and highly automated HLA genotyping using next-generation sequencing: a transition from research to diagnostics. (PubMedID: 23557197) BMC genomics
01/01/2013
Integration of mate pair sequences to improve shotgun assemblies of flow-sorted chromosome arms of hexaploid wheat. (PubMedID: 23557231) BMC genomics
01/01/2013
The transcriptome of Leishmania major in the axenic promastigote stage: transcript annotation and relative expression levels by RNA-seq. (PubMedID: 23557257) BMC genomics
01/01/2013
High-throughput genome sequencing of lichenizing fungi to assess gene loss in the ammonium transporter/ammonia permease gene family. (PubMedID: 23557360) BMC genomics
01/01/2013
Transcriptional and epigenetic signatures of zygotic genome activation during early Drosophila embryogenesis. (PubMedID: 23560912) BMC genomics
01/01/2013
High natural gene expression variation in the reef-building coral Acropora millepora: potential for acclimative and adaptive plasticity. (PubMedID: 23565725) BMC genomics
01/01/2013
Analysis of copy number variations in the sheep genome using 50K SNP BeadChip array. (PubMedID: 23565757) BMC genomics
01/01/2013
A carrier-assisted ChIP-seq method for estrogen receptor-chromatin interactions from breast cancer core needle biopsy samples. (PubMedID: 23565824) BMC genomics
01/01/2013
Identification of drought-responsive and novel Populus trichocarpa microRNAs by high-throughput sequencing and their targets using degradome analysis. (PubMedID: 23570526) BMC genomics
01/01/2013
Reevaluation of the evolutionary events within recA/RAD51 phylogeny. (PubMedID: 23574621) BMC genomics
01/01/2013
Integrated "omics" profiling indicates that miRNAs are modulators of the ontogenetic venom composition shift in the Central American rattlesnake, Crotalus simus simus. (PubMedID: 23575160) BMC genomics
01/01/2013
Tyrosine pathway regulation is host-mediated in the pea aphid symbiosis during late embryonic and early larval development. (PubMedID: 23575215) BMC genomics
01/01/2013
Transcriptional profiling of bud dormancy induction and release in oak by next-generation sequencing. (PubMedID: 23575249) BMC genomics
01/01/2013
High throughput transcriptome analysis of lipid metabolism in Syrian hamster liver in absence of an annotated genome. (PubMedID: 23575280) BMC genomics
01/01/2013
Genome-wide identification, classification and expression profiling of nicotianamine synthase (NAS) gene family in maize. (PubMedID: 23575343) BMC genomics
01/01/2013
Molecular cloning of doublesex genes of four cladocera (water flea) species. (PubMedID: 23575357) BMC genomics
01/01/2013
Spir2; a novel QTL on chromosome 4 contributes to susceptibility to pneumococcal infection in mice. (PubMedID: 23577770) BMC genomics
01/01/2013
Conserved expression of natural antisense transcripts in mammals. (PubMedID: 23577827) BMC genomics
01/01/2013
Novel genomes and genome constitutions identified by GISH and 5S rDNA and knotted1 genomic sequences in the genus Setaria. (PubMedID: 23577839) BMC genomics
01/01/2013
Transcriptome analysis reveals ginsenosides biosynthetic genes, microRNAs and simple sequence repeats in Panax ginseng C. A. Meyer. (PubMedID: 23577925) BMC genomics
01/01/2013
Trancriptional landscape of Aspergillus niger at breaking of conidial dormancy revealed by RNA-sequencing. (PubMedID: 23577966) BMC genomics
01/01/2013
Candidatus Liberibacter americanus induces significant reprogramming of the transcriptome of the susceptible citrus genotype. (PubMedID: 23586643) BMC genomics
01/01/2013
Exome sequencing of senescence-accelerated mice (SAM) reveals deleterious mutations in degenerative disease-causing genes. (PubMedID: 23586671) BMC genomics
01/01/2013
The significance of alternative transcripts for Caenorhabditis elegans transcription factor genes, based on expression pattern analysis. (PubMedID: 23586691) BMC genomics
01/01/2013
A multistep genomic screen identifies new genes required for repair of DNA double-strand breaks in Saccharomyces cerevisiae. (PubMedID: 23586741) BMC genomics
01/01/2013
Reductive evolution in Streptococcus agalactiae and the emergence of a host adapted lineage. (PubMedID: 23586779) BMC genomics
01/01/2013
Massively-parallel sequencing of genes on a single chromosome: a comparison of solution hybrid selection and flow sorting. (PubMedID: 23586822) BMC genomics
01/01/2013
Non-canonical protein-DNA interactions identified by ChIP are not artifacts. (PubMedID: 23586855) BMC genomics
01/01/2013
A zebrafish high throughput screening system used for Staphylococcus epidermidis infection marker discovery. (PubMedID: 23586901) BMC genomics
01/01/2013
Changes in the transcriptome of the malaria parasite Plasmodium falciparum during the initial phase of transmission from the human to the mosquito. (PubMedID: 23586929) BMC genomics
01/01/2013
Long-range transcriptional regulation by the p110 CUX1 homeodomain protein on the ENCODE array. (PubMedID: 23590133) BMC genomics
01/01/2013
Transcriptional basis of the acclimation to high environmental temperature at the olfactory receptor organs of Drosophila melanogaster. (PubMedID: 23590196) BMC genomics
01/01/2013
Improving mammalian genome scaffolding using large insert mate-pair next-generation sequencing. (PubMedID: 23590730) BMC genomics
01/01/2013
Transcriptome characterisation of Pinus tabuliformis and evolution of genes in the Pinus phylogeny. (PubMedID: 23597112) BMC genomics
01/01/2013
Dynamic recruitment of microRNAs to their mRNA targets in the regenerating liver. (PubMedID: 23597149) BMC genomics
01/01/2013
Simultaneous miRNA and mRNA transcriptome profiling of human myoblasts reveals a novel set of myogenic differentiation-associated miRNAs and their target genes. (PubMedID: 23597168) BMC genomics
01/01/2013
Characterization of differential transcript abundance through time during Nematostella vectensis development. (PubMedID: 23601508) BMC genomics
01/01/2013
Analysis of the spatial and temporal arrangement of transcripts over intergenic regions in the human malarial parasite Plasmodium falciparum. (PubMedID: 23601558) BMC genomics
01/01/2013
Translational signatures and mRNA levels are highly correlated in human stably expressed genes. (PubMedID: 23601824) BMC genomics
01/01/2013
P2RP: a Web-based framework for the identification and analysis of regulatory proteins in prokaryotic genomes. (PubMedID: 23601859) BMC genomics
01/01/2013
Comparative genomic analysis of four representative plant growth-promoting rhizobacteria in Pseudomonas. (PubMedID: 23607266) BMC genomics
01/01/2013
Transcriptional pathways associated with the slow growth phenotype of transformed Anaplasma marginale. (PubMedID: 23607288) BMC genomics
01/01/2013
Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici reveal polymorphic and haustorial expressed secreted proteins as candidate effectors. (PubMedID: 23607900) BMC genomics
01/01/2013
Gene expression patterns following unilateral traumatic brain injury reveals a local pro-inflammatory and remote anti-inflammatory response. (PubMedID: 23617241) BMC genomics
01/01/2013
Six novel Y chromosome genes in Anopheles mosquitoes discovered by independently sequencing males and females. (PubMedID: 23617698) BMC genomics
01/01/2013
Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi. (PubMedID: 23617724) BMC genomics
01/01/2013
Genomic meta-analysis of growth factor and integrin pathways in chronic kidney transplant injury. (PubMedID: 23617750) BMC genomics
01/01/2013
Screening of differentially expressed genes in the growth plate of broiler chickens with tibial dyschondroplasia by microarray analysis. (PubMedID: 23617778) BMC genomics
01/01/2013
A consensus map of rapeseed (Brassica napus L.) based on diversity array technology markers: applications in genetic dissection of qualitative and quantitative traits. (PubMedID: 23617817) BMC genomics
01/01/2013
Gene promoters show chromosome-specificity and reveal chromosome territories in humans. (PubMedID: 23617842) BMC genomics
01/01/2013
Transcriptome analysis of Cymbidium sinense and its application to the identification of genes associated with floral development. (PubMedID: 23617896) BMC genomics
01/01/2013
Prediction and identification of natural antisense transcripts and their small RNAs in soybean (Glycine max). (PubMedID: 23617936) BMC genomics
01/01/2013
Genome-wide association study of sleep in Drosophila melanogaster. (PubMedID: 23617951) BMC genomics
01/01/2013
Unscrambling butterfly oogenesis. (PubMedID: 23622113) BMC genomics
01/01/2013
Global remodeling of nucleosome positions in C. elegans. (PubMedID: 23622142) BMC genomics
01/01/2013
Acid shock of Listeria monocytogenes at low environmental temperatures induces prfA, epithelial cell invasion, and lethality towards Caenorhabditis elegans. (PubMedID: 23622257) BMC genomics
01/01/2013
Genome-wide promoter methylation profile of human testis and epididymis: identified from cell-free seminal DNA. (PubMedID: 23622456) BMC genomics
01/01/2013
ContigScape: a Cytoscape plugin facilitating microbial genome gap closing. (PubMedID: 23627759) BMC genomics
01/01/2013
Origins of amyloid-ß. (PubMedID: 23627794) BMC genomics
01/01/2013
Alterations in gene expression in Caenorhabditis elegans associated with organophosphate pesticide intoxication and recovery. (PubMedID: 23631360) BMC genomics
01/01/2013
Genome-wide transcriptional responses of two metal-tolerant symbiotic Mesorhizobium isolates to zinc and cadmium exposure. (PubMedID: 23631387) BMC genomics
01/01/2013
A data-driven approach to preprocessing Illumina 450K methylation array data. (PubMedID: 23631413) BMC genomics
01/01/2013
Sex-biased gene expression in the brown alga Fucus vesiculosus. (PubMedID: 23634783) BMC genomics
01/01/2013
Whole genome scanning and association mapping identified a significant association between growth and a SNP in the IFABP-a gene of the Asian seabass. (PubMedID: 23634810) BMC genomics
01/01/2013
Genome-wide analysis of the GH3 family in apple (Malus × domestica). (PubMedID: 23638690) BMC genomics
01/01/2013
5' tRNA halves are present as abundant complexes in serum, concentrated in blood cells, and modulated by aging and calorie restriction. (PubMedID: 23638709) BMC genomics
01/01/2013
Functional genomic analysis of bile salt resistance in Enterococcus faecium. (PubMedID: 23641968) BMC genomics
01/01/2013
Genome wide analysis of the complete GlnR nitrogen-response regulon in Mycobacterium smegmatis. (PubMedID: 23642041) BMC genomics
01/01/2013
Identification of somatic mutations in cancer through Bayesian-based analysis of sequenced genome pairs. (PubMedID: 23642077) BMC genomics
01/01/2013
Temporal changes of cytochrome P450 (Cyp) and eicosanoid-related gene expression in the rat brain after traumatic brain injury. (PubMedID: 23642095) BMC genomics
01/01/2013
Functional transcriptomic analysis of the role of MAB-5/Hox in Q neuroblast migration in Caenorhabditis elegans. (PubMedID: 23642123) BMC genomics
01/01/2013
Study of whole genome linkage disequilibrium in Nellore cattle. (PubMedID: 23642139) BMC genomics
01/01/2013
Gene-based single nucleotide polymorphism discovery in bovine muscle using next-generation transcriptomic sequencing. (PubMedID: 23651547) BMC genomics
01/01/2013
Transcriptome-wide comparison of sequence variation in divergent ecotypes of kokanee salmon. (PubMedID: 23651561) BMC genomics
01/01/2013
Short and long-term genome stability analysis of prokaryotic genomes. (PubMedID: 23651581) BMC genomics
01/01/2013
Characterisation of a transcriptome to find sequence differences between two differentially migrating subspecies of the willow warbler Phylloscopus trochilus. (PubMedID: 23672489) BMC genomics
01/01/2013
Differential transcript isoform usage pre- and post-zygotic genome activation in zebrafish. (PubMedID: 23676078) BMC genomics
01/01/2013
Structural and functional annotation of the porcine immunome. (PubMedID: 23676093) BMC genomics
01/01/2013
Genomic and physiological variability within Group II (non-proteolytic) Clostridium botulinum. (PubMedID: 23679073) BMC genomics
01/01/2013
Genetic parameters and genome-wide association study of hyperpigmentation of the visceral peritoneum in chickens. (PubMedID: 23679099) BMC genomics
01/01/2013
Frequent loss of lineages and deficient duplications accounted for low copy number of disease resistance genes in Cucurbitaceae. (PubMedID: 23682795) BMC genomics
01/01/2013
A simple and reproducible breast cancer prognostic test. (PubMedID: 23682826) BMC genomics
01/01/2013
Integrative genomic analysis of CREB defines a critical role for transcription factor networks in mediating the fed/fasted switch in liver. (PubMedID: 23682854) BMC genomics
01/01/2013
The role of microRNAs in the pathogenesis of MMPi-induced skin fibrodysplasia. (PubMedID: 23688202) BMC genomics
01/01/2013
Genomics-driven discovery of the pneumocandin biosynthetic gene cluster in the fungus Glarea lozoyensis. (PubMedID: 23688303) BMC genomics
01/01/2013
The complex transcriptional landscape of the anucleate human platelet. (PubMedID: 23323973) BMC genomics
01/01/2013
An initial assessment of linkage disequilibrium (LD) in coffee trees: LD patterns in groups of Coffea canephora Pierre using microsatellite analysis. (PubMedID: 23324026) BMC genomics
01/01/2013
Double restriction-enzyme digestion improves the coverage and accuracy of genome-wide CpG methylation profiling by reduced representation bisulfite sequencing. (PubMedID: 23324053) BMC genomics
01/01/2013
Cost-effective genome-wide estimation of allele frequencies from pooled DNA in Atlantic salmon (Salmo salar L.). (PubMedID: 23324082) BMC genomics
01/01/2013
Quality assessment and data handling methods for Affymetrix Gene 1.0 ST arrays with variable RNA integrity. (PubMedID: 23324084) BMC genomics
01/01/2013
Transcriptomic profiling of the salt-stress response in the wild recretohalophyte Reaumuria trigyna. (PubMedID: 23324106) BMC genomics
01/01/2013
Genetic architecture of gene expression in the chicken. (PubMedID: 23324119) BMC genomics
01/01/2013
Saccharopolyspora erythraea's genome is organised in high-order transcriptional regions mediated by targeted degradation at the metabolic switch. (PubMedID: 23324121) BMC genomics
01/01/2013
Genome-wide expression profiling of maize in response to individual and combined water and nitrogen stresses. (PubMedID: 23324127) BMC genomics
01/01/2013
Effect of the myostatin locus on muscle mass and intramuscular fat content in a cross between mouse lines selected for hypermuscularity. (PubMedID: 23324137) BMC genomics
01/01/2013
Identification of the Hevea brasiliensis AP2/ERF superfamily by RNA sequencing. (PubMedID: 23324139) BMC genomics
01/01/2013
Development and validation of microsatellite markers for Brachiaria ruziziensis obtained by partial genome assembly of Illumina single-end reads. (PubMedID: 23324172) BMC genomics
01/01/2013
Adjustment method for microarray data generated using two-cycle RNA labeling protocol. (PubMedID: 23324182) BMC genomics
01/01/2013
Genetic variation and expression diversity between grain and sweet sorghum lines. (PubMedID: 23324212) BMC genomics
01/01/2013
A RAD-based linkage map and comparative genomics in the gudgeons (genus Gnathopogon, Cyprinidae). (PubMedID: 23324215) BMC genomics
01/01/2013
Transcriptome analysis of rice root heterosis by RNA-Seq. (PubMedID: 23324257) BMC genomics
01/01/2013
Comparative gene expression between two yeast species. (PubMedID: 23324262) BMC genomics
01/01/2013
Saturated linkage map construction in Rubus idaeus using genotyping by sequencing and genome-independent imputation. (PubMedID: 23324311) BMC genomics
01/01/2013
Developmentally regulated expression and complex processing of barley pri-microRNAs. (PubMedID: 23324356) BMC genomics
01/01/2013
Draft genome sequence of the male-killing Wolbachia strain wBol1 reveals recent horizontal gene transfers from diverse sources. (PubMedID: 23324387) BMC genomics
01/01/2013
Enhancing the utility of Proteomics Signature Profiling (PSP) with Pathway Derived Subnets (PDSs), performance analysis and specialised ontologies. (PubMedID: 23324392) BMC genomics
01/01/2013
RNA-Seq analysis reveals new gene models and alternative splicing in the fungal pathogen Fusarium graminearum. (PubMedID: 23324402) BMC genomics
01/01/2013
Escherichia coli- and Staphylococcus aureus-induced mastitis differentially modulate transcriptional responses in neighbouring uninfected bovine mammary gland quarters. (PubMedID: 23324411) BMC genomics
01/01/2013
Comparative genome analysis of Spiroplasma melliferum IPMB4A, a honeybee-associated bacterium. (PubMedID: 23324436) BMC genomics
01/01/2013
Comprehensive meta-analysis of Signal Transducers and Activators of Transcription (STAT) genomic binding patterns discerns cell-specific cis-regulatory modules. (PubMedID: 23324445) BMC genomics
01/01/2013
Vasohibin-1 is identified as a master-regulator of endothelial cell apoptosis using gene network analysis. (PubMedID: 23324451) BMC genomics
01/01/2013
RNAi phenotypes are influenced by the genetic background of the injected strain. (PubMedID: 23324472) BMC genomics
01/01/2013
Effects of salinity on the transcriptome of growing maize leaf cells point at cell-age specificity in the involvement of the antioxidative response in cell growth restriction. (PubMedID: 23324477) BMC genomics
01/01/2013
Functional analysis of the ATP-binding cassette (ABC) transporter gene family of Tribolium castaneum. (PubMedID: 23324493) BMC genomics
01/01/2013
Multilevel comparative analysis of the contributions of genome reduction and heat shock to the Escherichia coli transcriptome. (PubMedID: 23324527) BMC genomics
01/01/2013
Differences in sequencing technologies improve the retrieval of anammox bacterial genome from metagenomes. (PubMedID: 23324532) BMC genomics
01/01/2013
Transcriptome profile analysis of young floral buds of fertile and sterile plants from the self-pollinated offspring of the hybrid between novel restorer line NR1 and Nsa CMS line in Brassica napus. (PubMedID: 23324545) BMC genomics
01/01/2013
A new computational approach redefines the subtelomeric vir superfamily of Plasmodium vivax. (PubMedID: 23324551) BMC genomics
01/01/2013
Transcriptome comparison and gene coexpression network analysis provide a systems view of citrus response to 'Candidatus Liberibacter asiaticus' infection. (PubMedID: 23324561) BMC genomics
01/01/2013
Identification of miRNAs and their targets using high-throughput sequencing and degradome analysis in cytoplasmic male-sterile and its maintainer fertile lines of Brassica juncea. (PubMedID: 23324572) BMC genomics
01/01/2013
An R2R3 MYB transcription factor determines red petal colour in an Actinidia (kiwifruit) hybrid population. (PubMedID: 23324587) BMC genomics
01/01/2013
Transcriptional profiling of the Arabidopsis abscission mutant hae hsl2 by RNA-Seq. (PubMedID: 23327667) BMC genomics
01/01/2013
Novel aspects of grapevine response to phytoplasma infection investigated by a proteomic and phospho-proteomic approach with data integration into functional networks. (PubMedID: 23327683) BMC genomics
01/01/2013
Use of somatic mutations to quantify random contributions to mouse development. (PubMedID: 23327737) BMC genomics
01/01/2013
Prediction of components of the sporopollenin synthesis pathway in peach by genomic and expression analyses. (PubMedID: 23331975) BMC genomics
01/01/2013
De novo transcriptome characterization of Vitis vinifera cv. Corvina unveils varietal diversity. (PubMedID: 23331995) BMC genomics
01/01/2013
Identification and profiling of conserved and novel microRNAs from Chinese Qinchuan bovine longissimus thoracis. (PubMedID: 23332031) BMC genomics
01/01/2013
Functional characterization and gene expression profiling of Drosophila melanogaster short dADA2b isoform-containing dSAGA complexes. (PubMedID: 23336284) BMC genomics
01/01/2013
In silico mining of putative microsatellite markers from whole genome sequence of water buffalo (Bubalus bubalis) and development of first BuffSatDB. (PubMedID: 23336431) BMC genomics
01/01/2013
Differential gene expression in the endometrium on gestation day 12 provides insight into sow prolificacy. (PubMedID: 23339594) BMC genomics
01/01/2013
Systems infection biology: a compartmentalized immune network of pig spleen challenged with Haemophilus parasuis. (PubMedID: 23339624) BMC genomics
01/01/2013
Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome. (PubMedID: 23339658) BMC genomics
01/01/2013
Phylogenetic and DNA methylation analysis reveal novel regions of variable methylation in the mouse IAP class of transposons. (PubMedID: 23343009) BMC genomics
01/01/2013
Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes. (PubMedID: 23343042) BMC genomics
01/01/2013
Comparison of similarity-based tests and pooling strategies for rare variants. (PubMedID: 23343094) BMC genomics
01/01/2013
Identification of medium-sized genomic deletions with low coverage, mate-paired restricted tags. (PubMedID: 23347462) BMC genomics
01/01/2013
Transcriptome of the dead: characterisation of immune genes and marker development from necropsy samples in a free-ranging marine mammal. (PubMedID: 23347513) BMC genomics
01/01/2013
Small RNA pyrosequencing in the protozoan parasite Entamoeba histolytica reveals strain-specific small RNAs that target virulence genes. (PubMedID: 23347563) BMC genomics
01/01/2013
Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction. (PubMedID: 23350846) BMC genomics
01/01/2013
A colorectal cancer genome-wide association study in a Spanish cohort identifies two variants associated with colorectal cancer risk at 1p33 and 8p12. (PubMedID: 23350875) BMC genomics
01/01/2013
Synonymous codon usage bias is correlative to intron number and shows disequilibrium among exons in plants. (PubMedID: 23350908) BMC genomics
01/01/2013
Genome-wide analysis of histone modifiers in tomato: gaining an insight into their developmental roles. (PubMedID: 23356725) BMC genomics
01/01/2013
A microsatellite-based linkage map of salt tolerant tilapia (Oreochromis mossambicus x Oreochromis spp.) and mapping of sex-determining loci. (PubMedID: 23356773) BMC genomics
01/01/2013
Development of a high density 600K SNP genotyping array for chicken. (PubMedID: 23356797) BMC genomics
01/01/2013
Conserved loci of leaf and stem rust fungi of wheat share synteny interrupted by lineage-specific influx of repeat elements. (PubMedID: 23356831) BMC genomics
01/01/2013
Extensive genomic characterization of a set of near-isogenic lines for heterotic QTL in maize (Zea mays L.). (PubMedID: 23360375) BMC genomics
01/01/2013
miR-296-3p, miR-298-5p and their downstream networks are causally involved in the higher resistance of mammalian pancreatic a cells to cytokine-induced apoptosis as compared to ß cells. (PubMedID: 23360399) BMC genomics
01/01/2013
Deep sequencing uncovers commonality in small RNA profiles between transgene-induced and naturally occurring RNA silencing of chalcone synthase-A gene in petunia. (PubMedID: 23360437) BMC genomics
01/01/2013
Comparison and contrast of genes and biological pathways responding to Marek's disease virus infection using allele-specific expression and differential expression in broiler and layer chickens. (PubMedID: 23363372) BMC genomics
01/01/2013
Genome-wide identification, characterization, and expression analysis of lineage-specific genes within zebrafish. (PubMedID: 23368736) BMC genomics
01/01/2013
Genome-wide identification of soybean microRNAs and their targets reveals their organ-specificity and responses to phosphate starvation. (PubMedID: 23368765) BMC genomics
01/01/2013
Genome-wide analysis of human hotspot intersected genes highlights the roles of meiotic recombination in evolution and disease. (PubMedID: 23368819) BMC genomics
01/01/2013
PuF, an antimetastatic and developmental signaling protein, interacts with the Alzheimer's amyloid-ß precursor protein via a tissue-specific proximal regulatory element (PRE). (PubMedID: 23368879) BMC genomics
01/01/2013
High quality de novo sequencing and assembly of the Saccharomyces arboricolus genome. (PubMedID: 23368932) BMC genomics
01/01/2013
Genome-wide analysis uncovers high frequency, strong differential chromosomal interactions and their associated epigenetic patterns in E2-mediated gene regulation. (PubMedID: 23368971) BMC genomics
01/01/2013
Comparison of class 2 transposable elements at superfamily resolution reveals conserved and distinct features in cereal grass genomes. (PubMedID: 23369001) BMC genomics
01/01/2013
Use of digital gene expression to discriminate gene expression differences in early generations of resynthesized Brassica napus and its diploid progenitors. (PubMedID: 23369045) BMC genomics
01/01/2013
Repeat-encoded poly-Q tracts show statistical commonalities across species. (PubMedID: 23374135) BMC genomics
01/01/2013
Genomic analysis of the regulatory elements and links with intrinsic DNA structural properties in the shrunken genome of Buchnera. (PubMedID: 23375088) BMC genomics
01/01/2013
A predictive signature gene set for discriminating active from latent tuberculosis in Warao Amerindian children. (PubMedID: 23375113) BMC genomics
01/01/2013
Draft genome sequence of the rubber tree Hevea brasiliensis. (PubMedID: 23375136) BMC genomics
01/01/2013
Characterisation of the wheat (Triticum aestivum L.) transcriptome by de novo assembly for the discovery of phosphate starvation-responsive genes: gene expression in Pi-stressed wheat. (PubMedID: 23379779) BMC genomics
01/01/2013
Analysis of the leaf transcriptome of Musa acuminata during interaction with Mycosphaerella musicola: gene assembly, annotation and marker development. (PubMedID: 23379821) BMC genomics
01/01/2013
Comparative genomics of Lupinus angustifolius gene-rich regions: BAC library exploration, genetic mapping and cytogenetics. (PubMedID: 23379841) BMC genomics
01/01/2013
Comparative genomic analyses of Mycoplasma hyopneumoniae pathogenic 168 strain and its high-passaged attenuated strain. (PubMedID: 23384176) BMC genomics
01/01/2013
Comparisons of infant Escherichia coli isolates link genomic profiles with adaptation to the ecological niche. (PubMedID: 23384204) BMC genomics
01/01/2013
DNA methylation profile dynamics of tissue-dependent and differentially methylated regions during mouse brain development. (PubMedID: 23387509) BMC genomics
01/01/2013
Genome-wide gene expression analysis of anguillid herpesvirus 1. (PubMedID: 23387531) BMC genomics
01/01/2013
An integrated approach to characterize transcription factor and microRNA regulatory networks involved in Schwann cell response to peripheral nerve injury. (PubMedID: 23387820) BMC genomics
01/01/2013
Profiling and metaanalysis of epidermal keratinocytes responses to epidermal growth factor. (PubMedID: 23391100) BMC genomics
01/01/2013
Genome-wide analysis in chicken reveals that local levels of genetic diversity are mainly governed by the rate of recombination. (PubMedID: 23394684) BMC genomics
01/01/2013
The transcriptome of the invasive eel swimbladder nematode parasite Anguillicola crassus. (PubMedID: 23394720) BMC genomics
01/01/2013
A robust and efficient statistical method for genetic association studies using case and control samples from multiple cohorts. (PubMedID: 23394771) BMC genomics
01/01/2013
Recombinant structures expand and contract inter and intragenic diversification at the KIR locus. (PubMedID: 23394822) BMC genomics
01/01/2013
Genotyping 1000 yeast strains by next-generation sequencing. (PubMedID: 23394869) BMC genomics
01/01/2013
Global analyses of Ceratocystis cacaofunesta mitochondria: from genome to proteome. (PubMedID: 23394930) BMC genomics
01/01/2013
Inferring evolution of gene duplicates using probabilistic models and nonparametric belief propagation. (PubMedID: 23368094) BMC genomics
01/01/2013
A computational approach for identifying microRNA-target interactions using high-throughput CLIP and PAR-CLIP sequencing. (PubMedID: 23368412) BMC genomics
01/01/2013
Expanding the boundaries of local similarity analysis. (PubMedID: 23368516) BMC genomics
01/01/2013
A genome-wide cis-regulatory element discovery method based on promoter sequences and gene co-expression networks. (PubMedID: 23368633) BMC genomics
01/01/2013
Genomic differences between cultivated soybean, G. max and its wild relative G. soja. (PubMedID: 23368680) BMC genomics
01/01/2013
FitSearch: a robust way to interpret a yeast fitness profile in terms of drug's mode-of-action. (PubMedID: 23368702) BMC genomics
01/01/2013
BayesHammer: Bayesian clustering for error correction in single-cell sequencing. (PubMedID: 23368723) BMC genomics
01/01/2013
Genome reassembly with high-throughput sequencing data. (PubMedID: 23368744) BMC genomics
01/01/2013
Improved moderation for gene-wise variance estimation in RNA-Seq via the exploitation of external information. (PubMedID: 23368783) BMC genomics
01/01/2013
A unified approach for allele frequency estimation, SNP detection and association studies based on pooled sequencing data using EM algorithms. (PubMedID: 23369070) BMC genomics
01/01/2013
Sum of parts is greater than the whole: inference of common genetic history of populations. (PubMedID: 23369091) BMC genomics
01/01/2013
A probabilistic method for identifying rare variants underlying complex traits. (PubMedID: 23369113) BMC genomics
01/01/2013
Unraveling overlapping deletions by agglomerative clustering. (PubMedID: 23369161) BMC genomics
01/01/2013
Accelerating read mapping with FastHASH. (PubMedID: 23369189) BMC genomics
01/01/2013
Scoring relevancy of features based on combinatorial analysis of Lasso with application to lymphoma diagnosis. (PubMedID: 23369194) BMC genomics
01/01/2013
Combined ChIP-Seq and transcriptome analysis identifies AP-1/JunD as a primary regulator of oxidative stress and IL-1ß synthesis in macrophages. (PubMedID: 23398888) BMC genomics
01/01/2013
Antagonistic, overlapping and distinct responses to biotic stress in rice (Oryza sativa) and interactions with abiotic stress. (PubMedID: 23398910) BMC genomics
01/01/2013
Genomic reconstruction of transcriptional regulatory networks in lactic acid bacteria. (PubMedID: 23398941) BMC genomics
01/01/2013
Insights into the evolution of Darwin's finches from comparative analysis of the Geospiza magnirostris genome sequence. (PubMedID: 23402223) BMC genomics
01/01/2013
Ultra-deep mutant spectrum profiling: improving sequencing accuracy using overlapping read pairs. (PubMedID: 23402258) BMC genomics
01/01/2013
Transcriptomic analysis of differentially expressed genes during anther development in genetic male sterile and wild type cotton by digital gene-expression profiling. (PubMedID: 23402279) BMC genomics
01/01/2013
Novel microRNA families expanded in the human genome. (PubMedID: 23402294) BMC genomics
01/01/2013
Nuclear Factor I genomic binding associates with chromatin boundaries. (PubMedID: 23402308) BMC genomics
01/01/2013
A hybrid next generation transcript sequencing-based approach to identify allelic and homeolog-specific single nucleotide polymorphisms in allotetraploid white clover. (PubMedID: 23402685) BMC genomics
01/01/2013
AMY-tree: an algorithm to use whole genome SNP calling for Y chromosomal phylogenetic applications. (PubMedID: 23405914) BMC genomics
01/01/2013
Biclustering reveals breast cancer tumour subgroups with common clinical features and improves prediction of disease recurrence. (PubMedID: 23405961) BMC genomics
01/01/2013
Pause-melting misalignment: a novel model for the birth and motif indel of tandem repeats in the mitochondrial genome. (PubMedID: 23414101) BMC genomics
01/01/2013
A highly expressed miR-101 isomiR is a functional silencing small RNA. (PubMedID: 23414127) BMC genomics
01/01/2013
Genome-wide map of quantified epigenetic changes during in vitro chondrogenic differentiation of primary human mesenchymal stem cells. (PubMedID: 23414147) BMC genomics
01/01/2013
Novel core promoter elements in the oomycete pathogen Phytophthora infestans and their influence on expression detected by genome-wide analysis. (PubMedID: 23414203) BMC genomics
01/01/2013
Characterization of the global transcriptome for Pyropia haitanensis (Bangiales, Rhodophyta) and development of cSSR markers. (PubMedID: 23414227) BMC genomics
01/01/2013
The genomic signature of trait-associated variants. (PubMedID: 23418889) BMC genomics
01/01/2013
Genome-wide analysis of NBS-encoding disease resistance genes in Cucumis sativus and phylogenetic study of NBS-encoding genes in Cucurbitaceae crops. (PubMedID: 23418910) BMC genomics
01/01/2013
Learning contextual gene set interaction networks of cancer with condition specificity. (PubMedID: 23418942) BMC genomics
01/01/2013
MicroRNAs miR-26a, miR-26b, and miR-29b accelerate osteogenic differentiation of unrestricted somatic stem cells from human cord blood. (PubMedID: 23418963) BMC genomics
01/01/2013
Cross-species transcriptional network analysis reveals conservation and variation in response to metal stress in cyanobacteria. (PubMedID: 23421563) BMC genomics
01/01/2013
Systematic analysis of palatal transcriptome to identify cleft palate genes within TGFß3-knockout mice alleles: RNA-Seq analysis of TGFß3 Mice. (PubMedID: 23421592) BMC genomics
01/01/2013
Mitochondrial genomes of two Sinochlora species (Orthoptera): novel genome rearrangements and recognition sequence of replication origin. (PubMedID: 23425263) BMC genomics
01/01/2013
Analysis of the genomic sequence of Philosamia cynthia nucleopolyhedrin virus and comparison with Antheraea pernyi nucleopolyhedrin virus. (PubMedID: 23425301) BMC genomics
01/01/2013
Globin gene expression in correlation with G protein-related genes during erythroid differentiation. (PubMedID: 23425329) BMC genomics
01/01/2013
Transcriptome analyses reveal protein and domain families that delineate stage-related development in the economically important parasitic nematodes, Ostertagia ostertagi and Cooperia oncophora. (PubMedID: 23432754) BMC genomics
01/01/2013
MITEs in the promoters of effector genes allow prediction of novel virulence genes in Fusarium oxysporum. (PubMedID: 23432788) BMC genomics
01/01/2013
High-density SNP-based genetic map development and linkage disequilibrium assessment in Brassica napus L. (PubMedID: 23432809) BMC genomics
01/01/2013
Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism. (PubMedID: 23432824) BMC genomics
01/01/2013
Comparative genomics using teleost fish helps to systematically identify target gene bodies of functionally defined human enhancers. (PubMedID: 23432897) BMC genomics
01/01/2013
Comparative transcriptomics of early dipteran development. (PubMedID: 23432914) BMC genomics
01/01/2013
Phylogenetic patterns of emergence of new genes support a model of frequent de novo evolution. (PubMedID: 23433480) BMC genomics
01/01/2013
De novo assembly and characterization of transcriptome using Illumina paired-end sequencing and identification of CesA gene in ramie (Boehmeria nivea L. Gaud). (PubMedID: 23442184) BMC genomics
01/01/2013
Massive screening of copy number population-scale variation in Bos taurus genome. (PubMedID: 23442185) BMC genomics
01/01/2013
Global analysis of transcriptional regulators in Staphylococcus aureus. (PubMedID: 23442205) BMC genomics
01/01/2013
Genetic analysis of the Trichuris muris-induced model of colitis reveals QTL overlap and a novel gene cluster for establishing colonic inflammation. (PubMedID: 23442222) BMC genomics
01/01/2013
A Poisson hierarchical modelling approach to detecting copy number variation in sequence coverage data. (PubMedID: 23442253) BMC genomics
01/01/2013
Neurocarta: aggregating and sharing disease-gene relations for the neurosciences. (PubMedID: 23442263) BMC genomics
01/01/2013
Identification and functional analysis of cytochrome P450 complement in Streptomyces virginiae IBL14. (PubMedID: 23442312) BMC genomics
01/01/2013
Genome-wide detection of copy number variations using high-density SNP genotyping platforms in Holsteins. (PubMedID: 23442346) BMC genomics
01/01/2013
Accurate indel prediction using paired-end short reads. (PubMedID: 23442375) BMC genomics
01/01/2013
Pathway-focused bioassays and transcriptome analysis contribute to a better activity monitoring of complex herbal remedies. (PubMedID: 23445205) BMC genomics
01/01/2013
Horizontal transfer of OC1 transposons in the Tasmanian devil. (PubMedID: 23445260) BMC genomics
01/01/2013
Why so many unknown genes? Partitioning orphans from a representative transcriptome of the lone star tick Amblyomma americanum. (PubMedID: 23445305) BMC genomics
01/01/2013
A Drosophila functional evaluation of candidates from human genome-wide association studies of type?2?diabetes and related metabolic traits identifies tissue-specific roles for dHHEX. (PubMedID: 23445342) BMC genomics
01/01/2013
A SNP resource for Douglas-fir: de novo transcriptome assembly and SNP detection and validation. (PubMedID: 23445355) BMC genomics
01/01/2013
PacC and pH-dependent transcriptome of the mycotrophic fungus Trichoderma virens. (PubMedID: 23445374) BMC genomics
01/01/2013
MicroRNA miR-30 family regulates non-attachment growth of breast cancer cells. (PubMedID: 23445407) BMC genomics
01/01/2013
MicroRNAs and their putative targets in Brassica napus seed maturation. (PubMedID: 23448243) BMC genomics
01/01/2013
Whole human genome proteogenomic mapping for ENCODE cell line data: identifying protein-coding regions. (PubMedID: 23448259) BMC genomics
01/01/2013
New enumeration algorithm for protein structure comparison and classification. (PubMedID: 23445440) BMC genomics
01/01/2013
A highly accurate heuristic algorithm for the haplotype assembly problem. (PubMedID: 23445458) BMC genomics
01/01/2013
miRNA-target prediction based on transcriptional regulation. (PubMedID: 23445489) BMC genomics
01/01/2013
How far in-silico computing meets real experiments. A study on the structure and dynamics of spin labeled vinculin tail protein by molecular dynamics simulations and EPR spectroscopy. (PubMedID: 23445506) BMC genomics
01/01/2013
MixSIH: a mixture model for single individual haplotyping. (PubMedID: 23445519) BMC genomics
01/01/2013
Multiclass relevance units machine: benchmark evaluation and application to small ncRNA discovery. (PubMedID: 23445533) BMC genomics
01/01/2013
iSeeRNA: identification of long intergenic non-coding RNA transcripts from transcriptome sequencing data. (PubMedID: 23445546) BMC genomics
01/01/2013
Fast probabilistic file fingerprinting for big data. (PubMedID: 23445565) BMC genomics
01/01/2013
Two-way AIC: detection of differentially expressed genes from large scale microarray meta-dataset. (PubMedID: 23445621) BMC genomics
01/01/2013
Identifying structural domains of proteins using clustering. (PubMedID: 23116496) BMC bioinformatics
01/01/2013
The utility of comparative models and the local model quality for protein crystal structure determination by Molecular Replacement. (PubMedID: 23126528) BMC bioinformatics
01/01/2013
The Enzyme Portal: a case study in applying user-centred design methods in bioinformatics. (PubMedID: 23514033) BMC bioinformatics
01/01/2013
A novel method to assess collagen architecture in skin. (PubMedID: 23971965) BMC bioinformatics
01/01/2013
WholeCellViz: data visualization for whole-cell models. (PubMedID: 23964998) BMC bioinformatics
01/01/2013
The GMOseek matrix: a decision support tool for optimizing the detection of genetically modified plants. (PubMedID: 23965170) BMC bioinformatics
01/01/2013
GRank: a middleware search engine for ranking genes by relevance to given genes. (PubMedID: 23957362) BMC bioinformatics
01/01/2013
PKIS: computational identification of protein kinases for experimentally discovered protein phosphorylation sites. (PubMedID: 23941207) BMC bioinformatics
01/01/2013
ArkMAP: integrating genomic maps across species and data sources. (PubMedID: 23941167) BMC bioinformatics
01/01/2013
4273p: bioinformatics education on low cost ARM hardware. (PubMedID: 23937194) BMC bioinformatics
01/01/2013
Group sparse canonical correlation analysis for genomic data integration. (PubMedID: 23937249) BMC bioinformatics
01/01/2013
GOParGenPy: a high throughput method to generate Gene Ontology data matrices. (PubMedID: 23927037) BMC bioinformatics
01/01/2013
MatrixCatch--a novel tool for the recognition of composite regulatory elements in promoters. (PubMedID: 23924163) BMC bioinformatics
01/01/2013
Proceedings of the Seventh International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics, September 16-18, 2010, Palermo, Italy. (PubMedID: 23908986) BMC bioinformatics
01/01/2013
Robust flux balance analysis of multiscale biochemical reaction networks. (PubMedID: 23899245) BMC bioinformatics
01/01/2013
Surface feature based classification of plant organs from 3D laserscanned point clouds for plant phenotyping. (PubMedID: 23890277) BMC bioinformatics
01/01/2013
A new approach for prediction of tumor sensitivity to targeted drugs based on functional data. (PubMedID: 23890326) BMC bioinformatics
01/01/2013
DepthTools: an R package for a robust analysis of gene expression data. (PubMedID: 23885712) BMC bioinformatics
01/01/2013
A strategy to select suitable physicochemical attributes of amino acids for protein fold recognition. (PubMedID: 23879571) BMC bioinformatics
01/01/2013
Automatic extraction of biomolecular interactions: an empirical approach. (PubMedID: 23883165) BMC bioinformatics
01/01/2013
The KUPNetViz: a biological network viewer for multiple -omics datasets in kidney diseases. (PubMedID: 23883183) BMC bioinformatics
01/01/2013
svapls: an R package to correct for hidden factors of variability in gene expression studies. (PubMedID: 23883280) BMC bioinformatics
01/01/2013
Mining differential top-k co-expression patterns from time course comparative gene expression datasets. (PubMedID: 23870110) BMC bioinformatics
01/01/2013
Empirical assessment of competitive hybridization and noise in ultra high density canine tiling arrays. (PubMedID: 23870167) BMC bioinformatics
01/01/2013
Automatic landmark annotation and dense correspondence registration for 3D human facial images. (PubMedID: 23870191) BMC bioinformatics
01/01/2013
Fast online and index-based algorithms for approximate search of RNA sequence-structure patterns. (PubMedID: 23865810) BMC bioinformatics
01/01/2013
A fast weak motif-finding algorithm based on community detection in graphs. (PubMedID: 23865838) BMC bioinformatics
01/01/2013
CELDA -- an ontology for the comprehensive representation of cells in complex systems. (PubMedID: 23865855) BMC bioinformatics
01/01/2013
Classification of protein motifs based on subcellular localization uncovers evolutionary relationships at both sequence and functional levels. (PubMedID: 23865897) BMC bioinformatics
01/01/2013
Jenner-predict server: prediction of protein vaccine candidates (PVCs) in bacteria based on host-pathogen interactions. (PubMedID: 23815072) BMC bioinformatics
01/01/2013
Linear combination test for gene set analysis of a continuous phenotype. (PubMedID: 23815123) BMC bioinformatics
01/01/2013
PFClust: a novel parameter free clustering algorithm. (PubMedID: 23819480) BMC bioinformatics
01/01/2013
Comprehensive analysis of correlation coefficients estimated from pooling heterogeneous microarray data. (PubMedID: 23822712) BMC bioinformatics
01/01/2013
Gel2DE - a software tool for correlation analysis of 2D gel electrophoresis data. (PubMedID: 23829206) BMC bioinformatics
01/01/2013
Rapid forward-in-time simulation at the chromosome and genome level. (PubMedID: 23834340) BMC bioinformatics
01/01/2013
RCytoscape: tools for exploratory network analysis. (PubMedID: 23837656) BMC bioinformatics
01/01/2013
Software LS-MIDA for efficient mass isotopomer distribution analysis in metabolic modelling. (PubMedID: 23837681) BMC bioinformatics
01/01/2013
TCC: an R package for comparing tag count data with robust normalization strategies. (PubMedID: 23837715) BMC bioinformatics
01/01/2013
NURD: an implementation of a new method to estimate isoform expression from non-uniform RNA-seq data. (PubMedID: 23837734) BMC bioinformatics
01/01/2013
Alternate virtual populations elucidate the type I interferon signature predictive of the response to rituximab in rheumatoid arthritis. (PubMedID: 23841912) BMC bioinformatics
01/01/2013
Computational genetic neuroanatomy of the developing mouse brain: dimensionality reduction, visualization, and clustering. (PubMedID: 23845024) BMC bioinformatics
01/01/2013
Robust PCA based method for discovering differentially expressed genes. (PubMedID: 23815087) BMC bioinformatics
01/01/2013
Protein localization prediction using random walks on graphs. (PubMedID: 23815126) BMC bioinformatics
01/01/2013
Bioinformatics in Italy: BITS 2012, the ninth annual meeting of the Italian Society of Bioinformatics. (PubMedID: 23815154) BMC bioinformatics
01/01/2013
Scalable high-throughput identification of genetic targets by network filtering. (PubMedID: 23815162) BMC bioinformatics
01/01/2013
NGS-Trex: Next Generation Sequencing Transcriptome profile explorer. (PubMedID: 23815181) BMC bioinformatics
01/01/2013
Distinct position-specific sequence features of hexa-peptides that form amyloid-fibrils: application to discriminate between amyloid fibril and amorphous ß-aggregate forming peptide sequences. (PubMedID: 23815227) BMC bioinformatics
01/01/2013
WEP: a high-performance analysis pipeline for whole-exome data. (PubMedID: 23815231) BMC bioinformatics
01/01/2013
Logic Learning Machine creates explicit and stable rules stratifying neuroblastoma patients. (PubMedID: 23815266) BMC bioinformatics
01/01/2013
Acceleration of sequence clustering using longest common subsequence filtering. (PubMedID: 23815271) BMC bioinformatics
01/01/2013
A subgraph isomorphism algorithm and its application to biochemical data. (PubMedID: 23815292) BMC bioinformatics
01/01/2013
Biomimicry of quorum sensing using bacterial lifecycle model. (PubMedID: 23815296) BMC bioinformatics
01/01/2013
Prediction of peptide drift time in ion mobility mass spectrometry from sequence-based features. (PubMedID: 23815343) BMC bioinformatics
01/01/2013
Examples of sequence conservation analyses capture a subset of mouse long non-coding RNAs sharing homology with fish conserved genomic elements. (PubMedID: 23815359) BMC bioinformatics
01/01/2013
State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues? (PubMedID: 23815381) BMC bioinformatics
01/01/2013
Analysis and consensus of currently available intrinsic protein disorder annotation sources in the MobiDB database. (PubMedID: 23815411) BMC bioinformatics
01/01/2013
Alignment-free analysis of barcode sequences by means of compression-based methods. (PubMedID: 23815444) BMC bioinformatics
01/01/2013
VIRGO: visualization of A-to-I RNA editing sites in genomic sequences. (PubMedID: 23815474) BMC bioinformatics
01/01/2013
GAM-NGS: genomic assemblies merger for next generation sequencing. (PubMedID: 23815503) BMC bioinformatics
01/01/2013
Quasi-cellular systems: stochastic simulation analysis at nanoscale range. (PubMedID: 23815522) BMC bioinformatics
01/01/2013
A novel biclustering algorithm for the discovery of meaningful biological correlations between microRNAs and their target genes. (PubMedID: 23815553) BMC bioinformatics
01/01/2013
Identification and analysis of conserved pockets on protein surfaces. (PubMedID: 23815589) BMC bioinformatics
01/01/2013
Integrating peptides' sequence and energy of contact residues information improves prediction of peptide and HLA-I binding with unknown alleles. (PubMedID: 23815611) BMC bioinformatics
01/01/2013
Prediction of protein-protein interactions from amino acid sequences with ensemble extreme learning machines and principal component analysis. (PubMedID: 23815620) BMC bioinformatics
01/01/2013
Diagnostic prediction of complex diseases using phase-only correlation based on virtual sample template. (PubMedID: 23815677) BMC bioinformatics
01/01/2013
Locating tandem repeats in weighted sequences in proteins. (PubMedID: 23815711) BMC bioinformatics
01/01/2013
A decision theory paradigm for evaluating identifier mapping and filtering methods using data integration. (PubMedID: 23855655) BMC bioinformatics
01/01/2013
SLiMScape: a protein short linear motif analysis plugin for Cytoscape. (PubMedID: 23855714) BMC bioinformatics
01/01/2013
SNVHMM: predicting single nucleotide variants from next generation sequencing. (PubMedID: 23855743) BMC bioinformatics
01/01/2013
Evaluating genome architecture of a complex region via generalized bipartite matching. (PubMedID: 23734567) BMC bioinformatics
01/01/2013
Investigating mathematical models of immuno-interactions with early-stage cancer under an agent-based modelling perspective. (PubMedID: 23734575) BMC bioinformatics
01/01/2013
On the computational modeling of the innate immune system. (PubMedID: 23734602) BMC bioinformatics
01/01/2013
CLASS: constrained transcript assembly of RNA-seq reads. (PubMedID: 23734605) BMC bioinformatics
01/01/2013
A novel min-cost flow method for estimating transcript expression with RNA-Seq. (PubMedID: 23734627) BMC bioinformatics
01/01/2013
How oligoclonal are germinal centers? A new method for estimating clonal diversity from immunohistological sections. (PubMedID: 23734629) BMC bioinformatics
01/01/2013
Gene set enrichment analysis of RNA-Seq data: integrating differential expression and splicing. (PubMedID: 23734663) BMC bioinformatics
01/01/2013
In silico investigation into dendritic cell regulation of CD8Treg mediated killing of Th1 cells in murine experimental autoimmune encephalomyelitis. (PubMedID: 23734666) BMC bioinformatics
01/01/2013
De novo inference of stratification and local admixture in sequencing studies. (PubMedID: 23734678) BMC bioinformatics
01/01/2013
metaBEETL: high-throughput analysis of heterogeneous microbial populations from shotgun DNA sequences. (PubMedID: 23734710) BMC bioinformatics
01/01/2013
Joint genotype inference with germline and somatic mutations. (PubMedID: 23734724) BMC bioinformatics
01/01/2013
Discovering and mapping chromatin states using a tree hidden Markov model. (PubMedID: 23734743) BMC bioinformatics
01/01/2013
Prioritization of candidate disease genes by topological similarity between disease and protein diffusion profiles. (PubMedID: 23734762) BMC bioinformatics
01/01/2013
Bellerophon: a hybrid method for detecting interchromosomal rearrangements at base pair resolution using next-generation sequencing data. (PubMedID: 23734783) BMC bioinformatics
01/01/2013
De Bruijn Superwalk with Multiplicities Problem is NP-hard. (PubMedID: 23734822) BMC bioinformatics
01/01/2013
A random-permutations-based approach to fast read alignment. (PubMedID: 23734846) BMC bioinformatics
01/01/2013
Assembling contigs in draft genomes using reversals and block-interchanges. (PubMedID: 23734866) BMC bioinformatics
01/01/2013
Reconstruction of regulatory networks through temporal enrichment profiling and its application to H1N1 influenza viral infection. (PubMedID: 23734902) BMC bioinformatics
01/01/2013
Analytical results on the Beauchemin model of lymphocyte migration. (PubMedID: 23734948) BMC bioinformatics
01/01/2013
Multi-level model for the investigation of oncoantigen-driven vaccination effect. (PubMedID: 23734974) BMC bioinformatics
01/01/2013
Simulating the decentralized processes of the human immune system in a virtual anatomy model. (PubMedID: 23734994) BMC bioinformatics
01/01/2013
Meta-analysis of variables affecting mouse protection efficacy of whole organism Brucella vaccines and vaccine candidates. (PubMedID: 23735014) BMC bioinformatics
01/01/2013
AllerTOP--a server for in silico prediction of allergens. (PubMedID: 23735058) BMC bioinformatics
01/01/2013
Discovering motifs that induce sequencing errors. (PubMedID: 23735080) BMC bioinformatics
01/01/2013
Software tool for 3D extraction of germinal centers. (PubMedID: 23735122) BMC bioinformatics
01/01/2013
Discovering chromatin motifs using FAIRE sequencing and the human diploid genome. (PubMedID: 23656909) BMC genomics
01/01/2013
Meta-analyses of QTL for grain yield and anthesis silking interval in 18 maize populations evaluated under water-stressed and well-watered environments. (PubMedID: 23663209) BMC genomics
01/01/2013
Haplotype analysis of sucrose synthase gene family in three Saccharum species. (PubMedID: 23663250) BMC genomics
01/01/2013
Exploring the larval transcriptome of the common sole (Solea solea L.). (PubMedID: 23663263) BMC genomics
01/01/2013
Discovering putative prion sequences in complete proteomes using probabilistic representations of Q/N-rich domains. (PubMedID: 23663289) BMC genomics
01/01/2013
A burst of ABC genes in the genome of the polyphagous spider mite Tetranychus urticae. (PubMedID: 23663308) BMC genomics
01/01/2013
Genome-wide identification, characterization and expression analysis of populus leucine-rich repeat receptor-like protein kinase genes. (PubMedID: 23663326) BMC genomics
01/01/2013
Characterization of human plasma-derived exosomal RNAs by deep sequencing. (PubMedID: 23663360) BMC genomics
01/01/2013
Sequencing platform and library preparation choices impact viral metagenomes. (PubMedID: 23663384) BMC genomics
01/01/2013
Alterations in expression of endometrial genes coding for proteins secreted into the uterine lumen during conceptus elongation in cattle. (PubMedID: 23663413) BMC genomics
01/01/2013
Transcription profile of soybean-root-knot nematode interaction reveals a key role of phythormones in the resistance reaction. (PubMedID: 23663436) BMC genomics
01/01/2013
Interfacing cellular networks of S. cerevisiae and E. coli: connecting dynamic and genetic information. (PubMedID: 23663484) BMC genomics
01/01/2013
A gene expression restriction network mediated by sense and antisense Alu sequences located on protein-coding messenger RNAs. (PubMedID: 23663499) BMC genomics
01/01/2013
Physiological stressors and invasive plant infections alter the small RNA transcriptome of the rice blast fungus, Magnaporthe oryzae. (PubMedID: 23663523) BMC genomics
01/01/2013
Novel genomic resources for a climate change sensitive mammal: characterization of the American pika transcriptome. (PubMedID: 23663654) BMC genomics
01/01/2013
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. (PubMedID: 23663691) BMC genomics
01/01/2013
The role of NOI-domain containing proteins in plant immune signaling. (PubMedID: 23672422) BMC genomics
01/01/2013
Optimizing de novo assembly of short-read RNA-seq data for phylogenomics. (PubMedID: 23672450) BMC genomics
01/01/2013
Comparative transcriptome analysis and marker development of two closely related Primrose species (Primula poissonii and Primula wilsonii). (PubMedID: 23672467) BMC genomics
01/01/2013
Eliciting candidate anatomical routes for protein interactions: a scenario from endocrine physiology. (PubMedID: 23590598) BMC bioinformatics
01/01/2013
Robust methods for population stratification in genome wide association studies. (PubMedID: 23601181) BMC bioinformatics
01/01/2013
How cyanobacteria pose new problems to old methods: challenges in microarray time series analysis. (PubMedID: 23601192) BMC bioinformatics
01/01/2013
An efficient algorithm to perform multiple testing in epistasis screening. (PubMedID: 23617239) BMC bioinformatics
01/01/2013
Ensemble-based prediction of RNA secondary structures. (PubMedID: 23617269) BMC bioinformatics
01/01/2013
D-Light on promoters: a client-server system for the analysis and visualization of cis-regulatory elements. (PubMedID: 23617301) BMC bioinformatics
01/01/2013
Bacterial cell identification in differential interference contrast microscopy images. (PubMedID: 23617824) BMC bioinformatics
01/01/2013
Empirical Bayesian analysis of paired high-throughput sequencing data with a beta-binomial distribution. (PubMedID: 23617841) BMC bioinformatics
01/01/2013
Compression-based distance (CBD): a simple, rapid, and accurate method for microbiota composition comparison. (PubMedID: 23617892) BMC bioinformatics
01/01/2013
A flood-based information flow analysis and network minimization method for gene regulatory networks. (PubMedID: 23617932) BMC bioinformatics
01/01/2013
An automated graphics tool for comparative genomics: the Coulson plot generator. (PubMedID: 23621955) BMC bioinformatics
01/01/2013
Incorporating phylogenetic-based covarying mutations into RNAalifold for RNA consensus structure prediction. (PubMedID: 23621982) BMC bioinformatics
01/01/2013
Investigating the concordance of Gene Ontology terms reveals the intra- and inter-platform reproducibility of enrichment analysis. (PubMedID: 23627640) BMC bioinformatics
01/01/2013
Steiner tree methods for optimal sub-network identification: an empirical study. (PubMedID: 23627667) BMC bioinformatics
01/01/2013
Characterizing the state of the art in the computational assignment of gene function: lessons from the first critical assessment of functional annotation (CAFA). (PubMedID: 23630983) BMC bioinformatics
01/01/2013
Quality control, analysis and secure sharing of Luminex® immunoassay data using the open source LabKey Server platform. (PubMedID: 23631706) BMC bioinformatics
01/01/2013
Combining MEDLINE and publisher data to create parallel corpora for the automatic translation of biomedical text. (PubMedID: 23631733) BMC bioinformatics
01/01/2013
Quantifying variances in comparative RNA secondary structure prediction. (PubMedID: 23634662) BMC bioinformatics
01/01/2013
CNV-TV: a robust method to discover copy number variation from short sequencing reads. (PubMedID: 23634703) BMC bioinformatics
01/01/2013
A metadata-aware application for remote scoring and exchange of tissue microarray images. (PubMedID: 23635078) BMC bioinformatics
01/01/2013
Software for selecting the most informative sets of genomic loci for multi-target microbial typing. (PubMedID: 23635100) BMC bioinformatics
01/01/2013
Analysis of multiple phenotypes in genome-wide genetic mapping studies. (PubMedID: 23639181) BMC bioinformatics
01/01/2013
Comparison study on statistical features of predicted secondary structures for protein structural class prediction: From content to position. (PubMedID: 23641706) BMC bioinformatics
01/01/2013
Iterative rank-order normalization of gene expression microarray data. (PubMedID: 23647742) BMC bioinformatics
01/01/2013
Reconstituting protein interaction networks using parameter-dependent domain-domain interactions. (PubMedID: 23651452) BMC bioinformatics
01/01/2013
Greedy feature selection for glycan chromatography data with the generalized Dirichlet distribution. (PubMedID: 23651459) BMC bioinformatics
01/01/2013
Real-time interactive data mining for chemical imaging information: application to automated histopathology. (PubMedID: 23651487) BMC bioinformatics
01/01/2013
Copy number variation genotyping using family information. (PubMedID: 23656838) BMC bioinformatics
01/01/2013
Phylotastic! Making tree-of-life knowledge accessible, reusable and convenient. (PubMedID: 23668630) BMC bioinformatics
01/01/2013
MIMO: an efficient tool for molecular interaction maps overlap. (PubMedID: 23672344) BMC bioinformatics
01/01/2013
Disk-based k-mer counting on a PC. (PubMedID: 23679007) BMC bioinformatics
01/01/2013
Efficient algorithms for biological stems search. (PubMedID: 23679045) BMC bioinformatics
01/01/2013
Calcium (Ca2+) waves data calibration and analysis using image processing techniques. (PubMedID: 23679062) BMC bioinformatics
01/01/2013
Protein complex detection using interaction reliability assessment and weighted clustering coefficient. (PubMedID: 23688127) BMC bioinformatics
01/01/2013
Prediction of B-cell epitopes using evolutionary information and propensity scales. (PubMedID: 23484214) BMC bioinformatics
01/01/2013
SRAdb: query and use public next-generation sequencing data from within R. (PubMedID: 23323543) BMC bioinformatics
01/01/2013
BioCause: Annotating and analysing causality in the biomedical domain. (PubMedID: 23323613) BMC bioinformatics
01/01/2013
Testing robustness of relative complexity measure method constructing robust phylogenetic trees for Galanthus L. using the relative complexity measure. (PubMedID: 23323678) BMC bioinformatics
01/01/2013
Cophenetic metrics for phylogenetic trees, after Sokal and Rohlf. (PubMedID: 23323711) BMC bioinformatics
01/01/2013
SyntTax: a web server linking synteny to prokaryotic taxonomy. (PubMedID: 23323735) BMC bioinformatics
01/01/2013
Random generalized linear model: a highly accurate and interpretable ensemble predictor. (PubMedID: 23323760) BMC bioinformatics
01/01/2013
Mojo Hand, a TALEN design tool for genome editing applications. (PubMedID: 23323762) BMC bioinformatics
01/01/2013
More powerful significant testing for time course gene expression data using functional principal component analysis approaches. (PubMedID: 23323795) BMC bioinformatics
01/01/2013
Redundancy in electronic health record corpora: analysis, impact on text mining performance and mitigation strategies. (PubMedID: 23323800) BMC bioinformatics
01/01/2013
GSVA: gene set variation analysis for microarray and RNA-seq data. (PubMedID: 23323831) BMC bioinformatics
01/01/2013
An improved method to detect correct protein folds using partial clustering. (PubMedID: 23323835) BMC bioinformatics
01/01/2013
XperimentR: painless annotation of a biological experiment for the laboratory scientist. (PubMedID: 23323856) BMC bioinformatics
01/01/2013
A detailed error analysis of 13 kernel methods for protein-protein interaction extraction. (PubMedID: 23323857) BMC bioinformatics
01/01/2013
MotifLab: a tools and data integration workbench for motif discovery and regulatory sequence analysis. (PubMedID: 23323883) BMC bioinformatics
01/01/2013
FUSIM: a software tool for simulating fusion transcripts. (PubMedID: 23323884) BMC bioinformatics
01/01/2013
Negated bio-events: analysis and identification. (PubMedID: 23323936) BMC bioinformatics
01/01/2013
xMSanalyzer: automated pipeline for improved feature detection and downstream analysis of large-scale, non-targeted metabolomics data. (PubMedID: 23323971) BMC bioinformatics
01/01/2013
The taxonomic name resolution service: an online tool for automated standardization of plant names. (PubMedID: 23324024) BMC bioinformatics
01/01/2013
CySBGN: a Cytoscape plug-in to integrate SBGN maps. (PubMedID: 23324051) BMC bioinformatics
01/01/2013
JContextExplorer: a tree-based approach to facilitate cross-species genomic context comparison. (PubMedID: 23324080) BMC bioinformatics
01/01/2013
Machine learning methods can replace 3D profile method in classification of amyloidogenic hexapeptides. (PubMedID: 23327628) BMC bioinformatics
01/01/2013
Kerfuffle: a web tool for multi-species gene colocalization analysis. (PubMedID: 23327649) BMC bioinformatics
01/01/2013
Genecentric: a package to uncover graph-theoretic structure in high-throughput epistasis data. (PubMedID: 23331614) BMC bioinformatics
01/01/2013
MICAN: a protein structure alignment algorithm that can handle Multiple-chains, Inverse alignments, C(a) only models, Alternative alignments, and Non-sequential alignments. (PubMedID: 23331634) BMC bioinformatics
01/01/2013
Extending the BEAGLE library to a multi-FPGA platform. (PubMedID: 23331707) BMC bioinformatics
01/01/2013
A Parzen window-based approach for the detection of locally enriched transcription factor binding sites. (PubMedID: 23331723) BMC bioinformatics
01/01/2013
Predicting PDZ domain mediated protein interactions from structure. (PubMedID: 23336252) BMC bioinformatics
01/01/2013
A fast least-squares algorithm for population inference. (PubMedID: 23343408) BMC bioinformatics
01/01/2013
Detecting recurrent gene mutation in interaction network context using multi-scale graph diffusion. (PubMedID: 23343428) BMC bioinformatics
01/01/2013
Seq2Ref: a web server to facilitate functional interpretation. (PubMedID: 23356573) BMC bioinformatics
01/01/2013
Estimation of data-specific constitutive exons with RNA-Seq data. (PubMedID: 23360225) BMC bioinformatics
01/01/2013
Mechanistic analysis of multi-omics datasets to generate kinetic parameters for constraint-based metabolic models. (PubMedID: 23360254) BMC bioinformatics
01/01/2013
HTQC: a fast quality control toolkit for Illumina sequencing data. (PubMedID: 23363224) BMC bioinformatics
01/01/2013
A Bayesian method and its variational approximation for prediction of genomic breeding values in multiple traits. (PubMedID: 23363272) BMC bioinformatics
01/01/2013
An integrated pharmacokinetics ontology and corpus for text mining. (PubMedID: 23374886) BMC bioinformatics
01/01/2013
The evolutionary rate of antibacterial drug targets. (PubMedID: 23374913) BMC bioinformatics
01/01/2013
A novel application of motion analysis for detecting stress responses in embryos at different stages of development. (PubMedID: 23374982) BMC bioinformatics
01/01/2013
FANTOM: Functional and taxonomic analysis of metagenomes. (PubMedID: 23375020) BMC bioinformatics
01/01/2013
An optimized algorithm for detecting and annotating regional differential methylation. (PubMedID: 23735126) BMC bioinformatics
01/01/2013
A mixture model for expression deconvolution from RNA-seq in heterogeneous tissues. (PubMedID: 23735186) BMC bioinformatics
01/01/2013
Gene prediction in metagenomic fragments based on the SVM algorithm. (PubMedID: 23735199) BMC bioinformatics
01/01/2013
??PT: a comprehensive toolbox for the analysis of protein motion. (PubMedID: 23758746) BMC bioinformatics
01/01/2013
Benchmarking short sequence mapping tools. (PubMedID: 23758764) BMC bioinformatics
01/01/2013
bioWeb3D: an online webGL 3D data visualisation tool. (PubMedID: 23758781) BMC bioinformatics
01/01/2013
MITE Digger, an efficient and accurate algorithm for genome wide discovery of miniature inverted repeat transposable elements. (PubMedID: 23758809) BMC bioinformatics
01/01/2013
QualComp: a new lossy compressor for quality scores based on rate distortion theory. (PubMedID: 23758828) BMC bioinformatics
01/01/2013
ChIPXpress: using publicly available gene expression data to improve ChIP-seq and ChIP-chip target gene ranking. (PubMedID: 23758851) BMC bioinformatics
01/01/2013
Comparing somatic mutation-callers: beyond Venn diagrams. (PubMedID: 23758877) BMC bioinformatics
01/01/2013
Utilizing protein structure to identify non-random somatic mutations. (PubMedID: 23758891) BMC bioinformatics
01/01/2013
KNODWAT: a scientific framework application for testing knowledge discovery methods for the biomedical domain. (PubMedID: 23763826) BMC bioinformatics
01/01/2013
Boosting forward-time population genetic simulators through genotype compression. (PubMedID: 23763838) BMC bioinformatics
01/01/2013
FusionQ: a novel approach for gene fusion detection and quantification from paired-end RNA-Seq. (PubMedID: 23768108) BMC bioinformatics
01/01/2013
bioNerDS: exploring bioinformatics' database and software use through literature mining. (PubMedID: 23768135) BMC bioinformatics
01/01/2013
Quantifying single nucleotide variant detection sensitivity in exome sequencing. (PubMedID: 23773188) BMC bioinformatics
01/01/2013
HASP server: a database and structural visualization platform for comparative models of influenza A hemagglutinin proteins. (PubMedID: 23777206) BMC bioinformatics
01/01/2013
Sparse logistic regression with a L1/2 penalty for gene selection in cancer classification. (PubMedID: 23777239) BMC bioinformatics
01/01/2013
Incorporating time-delays in S-System model for reverse engineering genetic networks. (PubMedID: 23777625) BMC bioinformatics
01/01/2013
SeqSIMLA: a sequence and phenotype simulation tool for complex disease studies. (PubMedID: 23782512) BMC bioinformatics
01/01/2013
Using ancestral information to detect and localize quantitative trait loci in genome-wide association studies. (PubMedID: 23786262) BMC bioinformatics
01/01/2013
Bioinformatic pipelines in Python with Leaf. (PubMedID: 23786315) BMC bioinformatics
01/01/2013
MetaPathways: a modular pipeline for constructing pathway/genome databases from environmental sequence information. (PubMedID: 23800136) BMC bioinformatics
01/01/2013
Prediction of gene-phenotype associations in humans, mice, and plants using phenologs. (PubMedID: 23800157) BMC bioinformatics
01/01/2013
Deconvolution of gene expression from cell populations across the C. elegans lineage. (PubMedID: 23800200) BMC bioinformatics
01/01/2013
Automatic workflow for the classification of local DNA conformations. (PubMedID: 23800225) BMC bioinformatics
01/01/2013
Infection status outcome, machine learning method and virus type interact to affect the optimised prediction of hepatitis virus immunoassay results from routine pathology laboratory assays in unbalanced data. (PubMedID: 23800244) BMC bioinformatics
01/01/2013
MeSH indexing based on automatically generated summaries. (PubMedID: 23802936) BMC bioinformatics
01/01/2013
GenPhyloData: realistic simulation of gene family evolution. (PubMedID: 23803001) BMC bioinformatics
01/01/2013
Gene set analysis using variance component tests. (PubMedID: 23806107) BMC bioinformatics
01/01/2013
Learning smoothing models of copy number profiles using breakpoint annotations. (PubMedID: 23697330) BMC bioinformatics
01/01/2013
Separate-channel analysis of two-channel microarrays: recovering inter-spot information. (PubMedID: 23705896) BMC bioinformatics
01/01/2013
GWAS on your notebook: fast semi-parallel linear and logistic regression for genome-wide association studies. (PubMedID: 23711206) BMC bioinformatics
01/01/2013
Identifying cancer mutation targets across thousands of samples: MuteProc, a high throughput mutation analysis pipeline. (PubMedID: 23714400) BMC bioinformatics
01/01/2013
Accounting for immunoprecipitation efficiencies in the statistical analysis of ChIP-seq data. (PubMedID: 23721376) BMC bioinformatics
01/01/2013
Oral cancer prognosis based on clinicopathologic and genomic markers using a hybrid of feature selection and machine learning methods. (PubMedID: 23725313) BMC bioinformatics
01/01/2013
GeneRIF indexing: sentence selection based on machine learning. (PubMedID: 23725347) BMC bioinformatics
01/01/2013
A semi-automated genome annotation comparison and integration scheme. (PubMedID: 23725374) BMC bioinformatics
01/01/2013
Region-based progressive localization of cell nuclei in microscopic images with data adaptive modeling. (PubMedID: 23725412) BMC bioinformatics
01/01/2013
PMTED: a plant microRNA target expression database. (PubMedID: 23725466) BMC bioinformatics
01/01/2013
Wide coverage biomedical event extraction using multiple partially overlapping corpora. (PubMedID: 23731785) BMC bioinformatics
01/01/2013
Routine performance and errors of 454 HLA exon sequencing in diagnostics. (PubMedID: 23731822) BMC bioinformatics
01/01/2013
The admixture maximum likelihood test to test for association between rare variants and disease phenotypes. (PubMedID: 23738568) BMC bioinformatics
01/01/2013
Exploring the transcription factor activity in high-throughput gene expression data using RLQ analysis. (PubMedID: 23742070) BMC bioinformatics
01/01/2013
Modelling and visualizing fine-scale linkage disequilibrium structure. (PubMedID: 23742095) BMC bioinformatics
01/01/2013
Computational framework to support integration of biomolecular and clinical data within a translational approach. (PubMedID: 23742129) BMC bioinformatics
01/01/2013
Large-scale extraction of accurate drug-disease treatment pairs from biomedical literature for drug repurposing. (PubMedID: 23742147) BMC bioinformatics
01/01/2013
Clustering cliques for graph-based summarization of the biomedical research literature. (PubMedID: 23742159) BMC bioinformatics
01/01/2013
An inferential framework for biological network hypothesis tests. (PubMedID: 23496778) BMC bioinformatics
01/01/2013
CGAP: a new comprehensive platform for the comparative analysis of chloroplast genomes. (PubMedID: 23496817) BMC bioinformatics
01/01/2013
Mining for class-specific motifs in protein sequence classification. (PubMedID: 23496846) BMC bioinformatics
01/01/2013
Estimate hidden dynamic profiles of siRNA effect on apoptosis. (PubMedID: 23496896) BMC bioinformatics
01/01/2013
NightShift: NMR shift inference by general hybrid model training--a framework for NMR chemical shift prediction. (PubMedID: 23496927) BMC bioinformatics
01/01/2013
GenePainter: a fast tool for aligning gene structures of eukaryotic protein families, visualizing the alignments and mapping gene structures onto protein structures. (PubMedID: 23496949) BMC bioinformatics
01/01/2013
AUREA: an open-source software system for accurate and user-friendly identification of relative expression molecular signatures. (PubMedID: 23496976) BMC bioinformatics
01/01/2013
Comparative analysis of microbiome measurement platforms using latent variable structural equation modeling. (PubMedID: 23497007) BMC bioinformatics
01/01/2013
Prediction of heterogeneous differential genes by detecting outliers to a Gaussian tight cluster. (PubMedID: 23497043) BMC bioinformatics
01/01/2013
Learning a peptide-protein binding affinity predictor with kernel ridge regression. (PubMedID: 23497081) BMC bioinformatics
01/01/2013
HuntMi: an efficient and taxon-specific approach in pre-miRNA identification. (PubMedID: 23497112) BMC bioinformatics
01/01/2013
Bivariate segmentation of SNP-array data for allele-specific copy number analysis in tumour samples. (PubMedID: 23497144) BMC bioinformatics
01/01/2013
Make the most of your samples: Bayes factor estimators for high-dimensional models of sequence evolution. (PubMedID: 23497171) BMC bioinformatics
01/01/2013
Age-adjusted nonparametric detection of differential DNA methylation with case-control designs. (PubMedID: 23497201) BMC bioinformatics
01/01/2013
Empirical Bayes estimation of posterior probabilities of enrichment: a comparative study of five estimators of the local false discovery rate. (PubMedID: 23497228) BMC bioinformatics
01/01/2013
DNdisorder: predicting protein disorder using boosting and deep networks. (PubMedID: 23497251) BMC bioinformatics
01/01/2013
Digital sorting of complex tissues for cell type-specific gene expression profiles. (PubMedID: 23497278) BMC bioinformatics
01/01/2013
An improved sequence based prediction protocol for DNA-binding proteins using SVM and comprehensive feature analysis. (PubMedID: 23497329) BMC bioinformatics
01/01/2013
A comparison of methods for differential expression analysis of RNA-seq data. (PubMedID: 23497356) BMC bioinformatics
01/01/2013
Inferring microRNA and transcription factor regulatory networks in heterogeneous data. (PubMedID: 23497388) BMC bioinformatics
01/01/2013
A distance-field based automatic neuron tracing method. (PubMedID: 23497429) BMC bioinformatics
01/01/2013
Unsupervised Bayesian linear unmixing of gene expression microarrays. (PubMedID: 23506672) BMC bioinformatics
01/01/2013
Adaptive filtering of microarray gene expression data based on Gaussian mixture decomposition. (PubMedID: 23510016) BMC bioinformatics
01/01/2013
Mobilomics in Saccharomyces cerevisiae strains. (PubMedID: 23514613) BMC bioinformatics
01/01/2013
Application of text-mining for updating protein post-translational modification annotation in UniProtKB. (PubMedID: 23517090) BMC bioinformatics
01/01/2013
SDM-Assist software to design site-directed mutagenesis primers introducing "silent" restriction sites. (PubMedID: 23522286) BMC bioinformatics
01/01/2013
SMOTE for high-dimensional class-imbalanced data. (PubMedID: 23522326) BMC bioinformatics
01/01/2013
Non-negative matrix factorization by maximizing correntropy for cancer clustering. (PubMedID: 23522344) BMC bioinformatics
01/01/2013
LASAGNA: a novel algorithm for transcription factor binding site alignment. (PubMedID: 23522376) BMC bioinformatics
01/01/2013
Computational vaccinology and the ICoVax 2012 workshop. (PubMedID: 23514034) BMC bioinformatics
01/01/2013
Evaluation and integration of existing methods for computational prediction of allergens. (PubMedID: 23514097) BMC bioinformatics
01/01/2013
Protein function prediction by massive integration of evolutionary analyses and multiple data sources. (PubMedID: 23514099) BMC bioinformatics
01/01/2013
Combining heterogeneous data sources for accurate functional annotation of proteins. (PubMedID: 23514123) BMC bioinformatics
01/01/2013
Genome-wide prediction of vaccine targets for human herpes simplex viruses using Vaxign reverse vaccinology. (PubMedID: 23514126) BMC bioinformatics
01/01/2013
Functional inference by ProtoNet family tree: the uncharacterized proteome of Daphnia pulex. (PubMedID: 23514195) BMC bioinformatics
01/01/2013
Prediction of conformational epitopes with the use of a knowledge-based energy function and geometrically related neighboring residue characteristics. (PubMedID: 23514199) BMC bioinformatics
01/01/2013
Concomitant prediction of function and fold at the domain level with GO-based profiles. (PubMedID: 23514233) BMC bioinformatics
01/01/2013
Protein-ligand binding region prediction (PLB-SAVE) based on geometric features and CUDA acceleration. (PubMedID: 23514235) BMC bioinformatics
01/01/2013
Protein function annotation with Structurally Aligned Local Sites of Activity (SALSAs). (PubMedID: 23514271) BMC bioinformatics
01/01/2013
Bioinformatics analysis of the epitope regions for norovirus capsid protein. (PubMedID: 23514273) BMC bioinformatics
01/01/2013
Protein function prediction using text-based features extracted from the biomedical literature: the CAFA challenge. (PubMedID: 23514326) BMC bioinformatics
01/01/2013
In-depth performance evaluation of PFP and ESG sequence-based function prediction methods in CAFA 2011 experiment. (PubMedID: 23514353) BMC bioinformatics
01/01/2013
Three-level prediction of protein function by combining profile-sequence search, profile-profile search, and domain co-occurrence networks. (PubMedID: 23514381) BMC bioinformatics
01/01/2013
How to inherit statistically validated annotation within BAR+ protein clusters. (PubMedID: 23514411) BMC bioinformatics
01/01/2013
Protein function prediction using domain families. (PubMedID: 23514456) BMC bioinformatics
01/01/2013
Function prediction from networks of local evolutionary similarity in protein structure. (PubMedID: 23514548) BMC bioinformatics
01/01/2013
Homology-based inference sets the bar high for protein function prediction. (PubMedID: 23514582) BMC bioinformatics
01/01/2013
MS-kNN: protein function prediction by integrating multiple data sources. (PubMedID: 23514608) BMC bioinformatics
01/01/2013
A domain-centric solution to functional genomics via dcGO Predictor. (PubMedID: 23514627) BMC bioinformatics
01/01/2013
TPMS: a set of utilities for querying collections of gene trees. (PubMedID: 23530580) BMC bioinformatics
01/01/2013
Differential expression analysis for paired RNA-Seq data. (PubMedID: 23530607) BMC bioinformatics
01/01/2013
A benchmark server using high resolution protein structure data, and benchmark results for membrane helix predictions. (PubMedID: 23530628) BMC bioinformatics
01/01/2013
A systematic comparison of the MetaCyc and KEGG pathway databases. (PubMedID: 23530693) BMC bioinformatics
01/01/2013
Using cited references to improve the retrieval of related biomedical documents. (PubMedID: 23537461) BMC bioinformatics
01/01/2013
Computing minimal nutrient sets from metabolic networks via linear constraint solving. (PubMedID: 23537498) BMC bioinformatics
01/01/2013
PlanktoVision--an automated analysis system for the identification of phytoplankton. (PubMedID: 23537512) BMC bioinformatics
01/01/2013
PASTA: splice junction identification from RNA-sequencing data. (PubMedID: 23557086) BMC bioinformatics
01/01/2013
CUDASW++ 3.0: accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions. (PubMedID: 23557111) BMC bioinformatics
01/01/2013
Effects of using coding potential, sequence conservation and mRNA structure conservation for predicting pyrrolysine containing genes. (PubMedID: 23557142) BMC bioinformatics
01/01/2013
An AUC-based permutation variable importance measure for random forests. (PubMedID: 23560875) BMC bioinformatics
01/01/2013
Clustering evolving proteins into homologous families. (PubMedID: 23566217) BMC bioinformatics
01/01/2013
BioCode: two biologically compatible Algorithms for embedding data in non-coding and coding regions of DNA. (PubMedID: 23570444) BMC bioinformatics
01/01/2013
Computational identification of biologically functional non-hairpin GC-helices in human Argonaute mRNA. (PubMedID: 23574946) BMC bioinformatics
01/01/2013
An efficient post-hoc integration method improving peak alignment of metabolomics data from GCxGC/TOF-MS. (PubMedID: 23575005) BMC bioinformatics
01/01/2013
Random forest methodology for model-based recursive partitioning: the mobForest package for R. (PubMedID: 23577585) BMC bioinformatics
01/01/2013
The impact of quantile and rank normalization procedures on the testing power of gene differential expression analysis. (PubMedID: 23578321) BMC bioinformatics
01/01/2013
Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases. (PubMedID: 23586394) BMC bioinformatics
01/01/2013
VaccImm: simulating peptide vaccination in cancer therapy. (PubMedID: 23586423) BMC bioinformatics
01/01/2013
Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. (PubMedID: 23586463) BMC bioinformatics
01/01/2013
Base calling for high-throughput short-read sequencing: dynamic programming solutions. (PubMedID: 23586484) BMC bioinformatics
01/01/2013
Predicting substrates of the human breast cancer resistance protein using a support vector machine method. (PubMedID: 23586520) BMC bioinformatics