Published in BMC Bioinformatics on April 05, 2006
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MIMAS 3.0 is a Multiomics Information Management and Annotation System. BMC Bioinformatics (2009) 1.24
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The Sequence Ontology: a tool for the unification of genome annotations. Genome Biol (2005) 18.20
NCBI GEO: mining millions of expression profiles--database and tools. Nucleic Acids Res (2005) 17.61
Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution. Science (2005) 16.82
Design and implementation of microarray gene expression markup language (MAGE-ML). Genome Biol (2002) 16.75
ArrayExpress--a public repository for microarray gene expression data at the EBI. Nucleic Acids Res (2003) 15.48
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The MGED Ontology: a resource for semantics-based description of microarray experiments. Bioinformatics (2006) 7.37
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Standardizing global gene expression analysis between laboratories and across platforms. Nat Methods (2005) 6.23
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The Stanford Microarray Database accommodates additional microarray platforms and data formats. Nucleic Acids Res (2005) 4.17
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MARS: microarray analysis, retrieval, and storage system. BMC Bioinformatics (2005) 2.14
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Mammalian male germ cells are fertile ground for expression profiling of sexual reproduction. Reproduction (2005) 1.02
Mining meiosis and gametogenesis with DNA microarrays. Reproduction (2003) 0.98
Recent developments in high-throughput mutation screening. Pharmacogenomics (2001) 0.89
Using microarrays to predict resistance to chemotherapy in cancer patients. Pharmacogenomics (2004) 0.78
A whole-genome association study of major determinants for host control of HIV-1. Science (2007) 15.19
Genetic variation in IL28B is associated with chronic hepatitis C and treatment failure: a genome-wide association study. Gastroenterology (2010) 7.86
System-driven and oscillator-dependent circadian transcription in mice with a conditionally active liver clock. PLoS Biol (2007) 6.23
Common genetic variation and the control of HIV-1 in humans. PLoS Genet (2009) 3.68
Integration of microRNA miR-122 in hepatic circadian gene expression. Genes Dev (2009) 3.64
Functional annotation and network reconstruction through cross-platform integration of microarray data. Nat Biotechnol (2005) 3.30
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The circadian PAR-domain basic leucine zipper transcription factors DBP, TEF, and HLF modulate basal and inducible xenobiotic detoxification. Cell Metab (2006) 3.00
REV-ERBalpha participates in circadian SREBP signaling and bile acid homeostasis. PLoS Biol (2009) 2.76
The conserved transcriptome in human and rodent male gametogenesis. Proc Natl Acad Sci U S A (2007) 2.30
Functional interactions between sphingolipids and sterols in biological membranes regulating cell physiology. Mol Biol Cell (2009) 2.17
RefGenes: identification of reliable and condition specific reference genes for RT-qPCR data normalization. BMC Genomics (2011) 2.14
Decoding NMDA receptor signaling: identification of genomic programs specifying neuronal survival and death. Neuron (2007) 2.08
Genome-wide mRNA expression correlates of viral control in CD4+ T-cells from HIV-1-infected individuals. PLoS Pathog (2010) 1.90
Genomewide association study using a high-density single nucleotide polymorphism array and case-control design identifies a novel essential hypertension susceptibility locus in the promoter region of endothelial NO synthase. Hypertension (2011) 1.89
Natural gene-expression variation in Down syndrome modulates the outcome of gene-dosage imbalance. Am J Hum Genet (2007) 1.86
Gene expression during sex determination reveals a robust female genetic program at the onset of ovarian development. Dev Biol (2005) 1.85
Comparative transcriptomics of rice reveals an ancient pattern of response to microbial colonization. Proc Natl Acad Sci U S A (2005) 1.74
The Ume6 regulon coordinates metabolic and meiotic gene expression in yeast. Proc Natl Acad Sci U S A (2002) 1.74
Nuclear calcium signaling controls expression of a large gene pool: identification of a gene program for acquired neuroprotection induced by synaptic activity. PLoS Genet (2009) 1.72
Genome-wide, high-resolution DNA methylation profiling using bisulfite-mediated cytosine conversion. Genome Res (2008) 1.68
Comparative transcriptomics of extreme phenotypes of human HIV-1 infection and SIV infection in sooty mangabey and rhesus macaque. J Clin Invest (2011) 1.61
Transcription of two long noncoding RNAs mediates mating-type control of gametogenesis in budding yeast. Cell (2012) 1.61
goCluster integrates statistical analysis and functional interpretation of microarray expression data. Bioinformatics (2005) 1.50
Three-dimensional culture of melanoma cells profoundly affects gene expression profile: a high density oligonucleotide array study. J Cell Physiol (2005) 1.49
ADME pharmacogenetics: investigation of the pharmacokinetics of the antiretroviral agent lopinavir coformulated with ritonavir. Pharmacogenet Genomics (2010) 1.46
Execution of the meiotic noncoding RNA expression program and the onset of gametogenesis in yeast require the conserved exosome subunit Rrp6. Proc Natl Acad Sci U S A (2010) 1.39
Sertoli cell Dicer is essential for spermatogenesis in mice. Dev Biol (2008) 1.37
Re-examination of siRNA specificity questions role of PICH and Tao1 in the spindle checkpoint and identifies Mad2 as a sensitive target for small RNAs. Chromosoma (2009) 1.33
Expression profiling of mammalian male meiosis and gametogenesis identifies novel candidate genes for roles in the regulation of fertility. Mol Biol Cell (2004) 1.33
Gene profiling of skeletal muscle in an amyotrophic lateral sclerosis mouse model. Physiol Genomics (2007) 1.31
GermOnline 4.0 is a genomics gateway for germline development, meiosis and the mitotic cell cycle. Database (Oxford) (2010) 1.31
MIMAS 3.0 is a Multiomics Information Management and Annotation System. BMC Bioinformatics (2009) 1.24
Novel response to microtubule perturbation in meiosis. Mol Cell Biol (2005) 1.17
Rank Difference Analysis of Microarrays (RDAM), a novel approach to statistical analysis of microarray expression profiling data. BMC Bioinformatics (2004) 1.16
Silencing of c-Fos expression by microRNA-155 is critical for dendritic cell maturation and function. Blood (2011) 1.16
Oligonucleotide microarray analysis reveals PDX1 as an essential regulator of mitochondrial metabolism in rat islets. J Biol Chem (2004) 1.14
NPR1 kinase and RSP5-BUL1/2 ubiquitin ligase control GLN3-dependent transcription in Saccharomyces cerevisiae. J Biol Chem (2004) 1.10
Growth differentiation factor 15 production is necessary for normal erythroid differentiation and is increased in refractory anaemia with ring-sideroblasts. Br J Haematol (2008) 1.09
Genome-wide expression profiling, in vivo DNA binding analysis, and probabilistic motif prediction reveal novel Abf1 target genes during fermentation, respiration, and sporulation in yeast. Mol Biol Cell (2008) 1.09
Regulation of the EGF transcriptional response by endocytic sorting. Sci Signal (2012) 1.07
Estrogen receptor alpha is a major contributor to estrogen-mediated fetal testis dysgenesis and cryptorchidism. Endocrinology (2007) 1.05
Repression of essential chloroplast genes reveals new signaling pathways and regulatory feedback loops in chlamydomonas. Plant Cell (2013) 1.05
Adipose tissue integrity as a prerequisite for systemic energy balance: a critical role for peroxisome proliferator-activated receptor gamma. J Biol Chem (2007) 1.03
Mammalian male germ cells are fertile ground for expression profiling of sexual reproduction. Reproduction (2005) 1.02
Ashbya Genome Database 3.0: a cross-species genome and transcriptome browser for yeast biologists. BMC Genomics (2007) 1.01
Loss of Dicer in Sertoli cells has a major impact on the testicular proteome of mice. Mol Cell Proteomics (2010) 1.01
No widespread induction of cell death genes occurs in pure motoneurons in an amyotrophic lateral sclerosis mouse model. Hum Mol Genet (2005) 1.01
The Annotation, Mapping, Expression and Network (AMEN) suite of tools for molecular systems biology. BMC Bioinformatics (2008) 1.01
Cross-platform gene expression signature of human spermatogenic failure reveals inflammatory-like response. Hum Reprod (2007) 1.00
Orientation and expression of methicillin-resistant Staphylococcus aureus small RNAs by direct multiplexed measurements using the nCounter of NanoString technology. J Microbiol Methods (2010) 1.00
Screening for biomarkers of spermatogonia within the human testis: a whole genome approach. Hum Reprod (2010) 0.98
Mining meiosis and gametogenesis with DNA microarrays. Reproduction (2003) 0.98
The GermOnline cross-species systems browser provides comprehensive information on genes and gene products relevant for sexual reproduction. Nucleic Acids Res (2006) 0.98
Novel murine dendritic cell lines: a powerful auxiliary tool for dendritic cell research. Front Immunol (2012) 0.97
XY Sox9 embryonic loss-of-function mouse mutants show complete sex reversal and produce partially fertile XY oocytes. Dev Biol (2011) 0.95
Gene expression profiling provides insights into pathways of oxaliplatin-related sinusoidal obstruction syndrome in humans. Mol Cancer Ther (2011) 0.95
SHH propagates distal limb bud development by enhancing CYP26B1-mediated retinoic acid clearance via AER-FGF signalling. Development (2011) 0.95
CPEB3 is associated with human episodic memory. Front Behav Neurosci (2009) 0.91
Engineering of dominant active basic helix-loop-helix proteins that are resistant to negative regulation by postnatal central nervous system antineurogenic cues. Stem Cells (2009) 0.91
PKCα is genetically linked to memory capacity in healthy subjects and to risk for posttraumatic stress disorder in genocide survivors. Proc Natl Acad Sci U S A (2012) 0.90
Mutations in the SPARC-related modular calcium-binding protein 1 gene, SMOC1, cause waardenburg anophthalmia syndrome. Am J Hum Genet (2010) 0.90
Functional features of cancer stem cells in melanoma cell lines. Cancer Cell Int (2013) 0.90
The Ashbya Genome Database (AGD)--a tool for the yeast community and genome biologists. Nucleic Acids Res (2005) 0.88
Transcriptional signature of an adult brain tumor in Drosophila. BMC Genomics (2004) 0.88
Microarray-based maps of copy-number variant regions in European and sub-Saharan populations. PLoS One (2010) 0.88
Muscle gene expression is a marker of amyotrophic lateral sclerosis severity. Neurodegener Dis (2011) 0.88
Evolutionary conservation of otd/Otx2 transcription factor action: a genome-wide microarray analysis in Drosophila. Genome Biol (2002) 0.87
Insulin and IGF1 receptors are essential for XX and XY gonadal differentiation and adrenal development in mice. PLoS Genet (2013) 0.87
Global human tissue profiling and protein network analysis reveals distinct levels of transcriptional germline-specificity and identifies target genes for male infertility. Hum Reprod (2012) 0.86
Global expression profiling of Chlamydomonas reinhardtii exposed to trace levels of free cadmium. Environ Toxicol Chem (2008) 0.86
The cutaneous lesions of dioxin exposure: lessons from the poisoning of Victor Yushchenko. Toxicol Sci (2011) 0.86
A mouse embryonic stem cell bank for inducible overexpression of human chromosome 21 genes. Genome Biol (2010) 0.86
An enhancer directs differential expression of the linked Mrf4 and Myf5 myogenic regulatory genes in the mouse. Dev Biol (2004) 0.85
Potential detrimental effects of a phytoestrogen-rich diet on male fertility in mice. Mol Cell Endocrinol (2010) 0.85
Toward understanding the core meiotic transcriptome in mammals and its implications for somatic cancer. Ann N Y Acad Sci (2007) 0.84
Using digital RNA counting and flow cytometry to compare mRNA with protein expression in acute leukemias. PLoS One (2012) 0.83