Published in Bioinformatics on November 15, 2007
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res (2008) 54.83
Evaluating reproducibility of differential expression discoveries in microarray studies by considering correlated molecular changes. Bioinformatics (2009) 1.29
Single sample expression-anchored mechanisms predict survival in head and neck cancer. PLoS Comput Biol (2012) 1.16
FunSimMat update: new features for exploring functional similarity. Nucleic Acids Res (2009) 1.04
Separate enrichment analysis of pathways for up- and downregulated genes. J R Soc Interface (2013) 0.95
Revealing and avoiding bias in semantic similarity scores for protein pairs. BMC Bioinformatics (2010) 0.95
Molecular signature of cancer at gene level or pathway level? Case studies of colorectal cancer and prostate cancer microarray data. Comput Math Methods Med (2013) 0.88
HybridGO-Loc: mining hybrid features on gene ontology for predicting subcellular localization of multi-location proteins. PLoS One (2014) 0.86
Identifying alternative hyper-splicing signatures in MG-thymoma by exon arrays. PLoS One (2008) 0.83
Identification of reproducible drug-resistance-related dysregulated genes in small-scale cancer cell line experiments. Sci Rep (2015) 0.79
Novel early response genes in osteoblasts exposed to dynamic fluid flow. Philos Trans A Math Phys Eng Sci (2010) 0.78
Gene bionetworks that regulate ovarian primordial follicle assembly. BMC Genomics (2013) 0.77
Annotator: postprocessing software for generating function-based signatures from quantitative mass spectrometry. J Proteome Res (2012) 0.76
SGFSC: speeding the gene functional similarity calculation based on hash tables. BMC Bioinformatics (2016) 0.75
An improved method for functional similarity analysis of genes based on Gene Ontology. BMC Syst Biol (2016) 0.75
Identifying reproducible cancer-associated highly expressed genes with important functional significances using multiple datasets. Sci Rep (2016) 0.75
Proceedings of the 2009 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) conference. Introduction. BMC Bioinformatics (2009) 0.75
A Method for the Annotation of Functional Similarities of Coding DNA Sequences: the Case of a Populated Cluster of Transmembrane Proteins. J Mol Evol (2016) 0.75
A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science (2002) 42.78
The sequence and de novo assembly of the giant panda genome. Nature (2009) 15.76
WEGO: a web tool for plotting GO annotations. Nucleic Acids Res (2006) 13.06
Using FlyAtlas to identify better Drosophila melanogaster models of human disease. Nat Genet (2007) 12.62
Transformation from committed progenitor to leukaemia stem cell initiated by MLL-AF9. Nature (2006) 11.90
Exome sequencing of head and neck squamous cell carcinoma reveals inactivating mutations in NOTCH1. Science (2011) 11.12
Lymphoproliferative disease and autoimmunity in mice with increased miR-17-92 expression in lymphocytes. Nat Immunol (2008) 10.42
The Collaborative Cross, a community resource for the genetic analysis of complex traits. Nat Genet (2004) 9.37
MiR-150 controls B cell differentiation by targeting the transcription factor c-Myb. Cell (2007) 9.33
Effect of aciclovir on HIV-1 acquisition in herpes simplex virus 2 seropositive women and men who have sex with men: a randomised, double-blind, placebo-controlled trial. Lancet (2008) 9.17
Selective chemical labeling reveals the genome-wide distribution of 5-hydroxymethylcytosine. Nat Biotechnol (2010) 9.01
Changes in diabetes-related complications in the United States, 1990-2010. N Engl J Med (2014) 8.73
The Genomes of Oryza sativa: a history of duplications. PLoS Biol (2005) 7.67
The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models. Nat Biotechnol (2010) 7.08
A draft sequence for the genome of the domesticated silkworm (Bombyx mori). Science (2004) 6.62
Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors. Proc Natl Acad Sci U S A (2010) 6.10
Long-term outcomes following abdominal sacrocolpopexy for pelvic organ prolapse. JAMA (2013) 6.07
A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature (2004) 5.24
Self-monitoring in weight loss: a systematic review of the literature. J Am Diet Assoc (2011) 5.12
Pyogenic bacterial infections in humans with MyD88 deficiency. Science (2008) 4.92
Innovative approaches for designing and analyzing adaptive dose-ranging trials. J Biopharm Stat (2007) 4.78
Hippo pathway inhibits Wnt signaling to restrain cardiomyocyte proliferation and heart size. Science (2011) 4.76
AlleleSeq: analysis of allele-specific expression and binding in a network framework. Mol Syst Biol (2011) 4.71
The E3 ligase TRAF6 regulates Akt ubiquitination and activation. Science (2009) 4.63
Nox4 is a protective reactive oxygen species generating vascular NADPH oxidase. Circ Res (2012) 4.19
Acute-on-chronic liver failure: consensus recommendations of the Asian Pacific Association for the study of the liver (APASL). Hepatol Int (2008) 4.16
Retracted The muscle-specific microRNAs miR-1 and miR-133 produce opposing effects on apoptosis by targeting HSP60, HSP70 and caspase-9 in cardiomyocytes. J Cell Sci (2007) 4.09
Priming of naive T cells inside tumors leads to eradication of established tumors. Nat Immunol (2004) 3.95
The splicing factor SC35 has an active role in transcriptional elongation. Nat Struct Mol Biol (2008) 3.86
Oncogenic cooperation and coamplification of developmental transcription factor genes in lung cancer. Proc Natl Acad Sci U S A (2007) 3.84
Covariate adjustment for two-sample treatment comparisons in randomized clinical trials: a principled yet flexible approach. Stat Med (2008) 3.83
Glycolytic enzymes can modulate cellular life span. Cancer Res (2005) 3.78
Phosphatidylinositol 4 phosphate regulates targeting of clathrin adaptor AP-1 complexes to the Golgi. Cell (2003) 3.75
Saturated fatty acids induce endoplasmic reticulum stress and apoptosis independently of ceramide in liver cells. Am J Physiol Endocrinol Metab (2006) 3.71
MicroRNA miR-34 inhibits human pancreatic cancer tumor-initiating cells. PLoS One (2009) 3.66
Large-gap quantum spin Hall insulators in tin films. Phys Rev Lett (2013) 3.60
Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice. Nat Genet (2010) 3.56
Genome dynamics and diversity of Shigella species, the etiologic agents of bacillary dysentery. Nucleic Acids Res (2005) 3.56
Circulating microRNA-1 as a potential novel biomarker for acute myocardial infarction. Biochem Biophys Res Commun (2009) 3.49
An epithelial-mesenchymal transition gene signature predicts resistance to EGFR and PI3K inhibitors and identifies Axl as a therapeutic target for overcoming EGFR inhibitor resistance. Clin Cancer Res (2012) 3.48
Melamine-contaminated powdered formula and urolithiasis in young children. N Engl J Med (2009) 3.46
MicroRNA expression signature and the role of microRNA-21 in the early phase of acute myocardial infarction. J Biol Chem (2009) 3.34
A nuclear function of beta-arrestin1 in GPCR signaling: regulation of histone acetylation and gene transcription. Cell (2005) 3.22
Regulation of ROS signal transduction by NADPH oxidase 4 localization. J Cell Biol (2008) 3.13
Sofosbuvir and Velpatasvir for HCV Genotype 2 and 3 Infection. N Engl J Med (2015) 3.13
A selective filter for cytoplasmic transport at the axon initial segment. Cell (2009) 3.09
Skp2 targeting suppresses tumorigenesis by Arf-p53-independent cellular senescence. Nature (2010) 3.09
HIV/STD risk behaviors and perceptions among rural-to-urban migrants in China. AIDS Educ Prev (2004) 3.04
Aligned single-crystalline Si nanowire arrays for photovoltaic applications. Small (2005) 2.98
Icotinib versus gefitinib in previously treated advanced non-small-cell lung cancer (ICOGEN): a randomised, double-blind phase 3 non-inferiority trial. Lancet Oncol (2013) 2.94
Evolution of the immunoglobulin heavy chain class switch recombination mechanism. Adv Immunol (2007) 2.94
The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. Genome Res (2003) 2.91
The cholesterol absorption inhibitor ezetimibe acts by blocking the sterol-induced internalization of NPC1L1. Cell Metab (2008) 2.84
Variants in the fat mass- and obesity-associated (FTO) gene are not associated with obesity in a Chinese Han population. Diabetes (2007) 2.83
NONCODE v3.0: integrative annotation of long noncoding RNAs. Nucleic Acids Res (2011) 2.82
Effect of KRAS oncogene substitutions on protein behavior: implications for signaling and clinical outcome. J Natl Cancer Inst (2012) 2.79
Rapid cardiotonic effects of lipid emulsion infusion*. Crit Care Med (2013) 2.76
Trends in incidence and mortality of nasopharyngeal carcinoma over a 20-25 year period (1978/1983-2002) in Sihui and Cangwu counties in southern China. BMC Cancer (2006) 2.71
BGI-RIS: an integrated information resource and comparative analysis workbench for rice genomics. Nucleic Acids Res (2004) 2.69
Proteomic profiling identifies dysregulated pathways in small cell lung cancer and novel therapeutic targets including PARP1. Cancer Discov (2012) 2.68
Trends in physical activity, sedentary behavior, diet, and BMI among US adolescents, 2001-2009. Pediatrics (2013) 2.66
Persistent antigen at vaccination sites induces tumor-specific CD8⁺ T cell sequestration, dysfunction and deletion. Nat Med (2013) 2.65
SphK1 and SphK2, sphingosine kinase isoenzymes with opposing functions in sphingolipid metabolism. J Biol Chem (2005) 2.64
Nuclear receptor Rev-erbalpha is a critical lithium-sensitive component of the circadian clock. Science (2006) 2.62
A developmental approach to complex PTSD: childhood and adult cumulative trauma as predictors of symptom complexity. J Trauma Stress (2009) 2.59
Large-scale prediction of long non-coding RNA functions in a coding-non-coding gene co-expression network. Nucleic Acids Res (2011) 2.55
Downregulation of miR-133 and miR-590 contributes to nicotine-induced atrial remodelling in canines. Cardiovasc Res (2009) 2.54
Pre-mRNA splicing: where and when in the nucleus. Trends Cell Biol (2011) 2.54
PDGF signalling controls age-dependent proliferation in pancreatic β-cells. Nature (2011) 2.53
The effect of passengers and risk-taking friends on risky driving and crashes/near crashes among novice teenagers. J Adolesc Health (2011) 2.53
Involvement of the ubiquitin-proteasome system in the early stages of wallerian degeneration. Neuron (2003) 2.51
Integrative genomic characterization of oral squamous cell carcinoma identifies frequent somatic drivers. Cancer Discov (2013) 2.49
Physics. Learning and scientific reasoning. Science (2009) 2.49
PILRalpha is a herpes simplex virus-1 entry coreceptor that associates with glycoprotein B. Cell (2008) 2.49
Liver transplantation for hepatocellular carcinoma: Hangzhou experiences. Transplantation (2008) 2.48
A glimpse of streptococcal toxic shock syndrome from comparative genomics of S. suis 2 Chinese isolates. PLoS One (2007) 2.47
Endothelial Nox4 NADPH oxidase enhances vasodilatation and reduces blood pressure in vivo. Arterioscler Thromb Vasc Biol (2011) 2.44
Structure of an RNA polymerase II-TFIIB complex and the transcription initiation mechanism. Science (2009) 2.43
Retracted Down-regulation of miR-1/miR-133 contributes to re-expression of pacemaker channel genes HCN2 and HCN4 in hypertrophic heart. J Biol Chem (2008) 2.41
Lenalidomide treatment promotes CD154 expression on CLL cells and enhances production of antibodies by normal B cells through a PI3-kinase-dependent pathway. Blood (2009) 2.39
A pilot study of the association of low plasma adiponectin and Barrett's esophagus. Am J Gastroenterol (2008) 2.39
Microarrays: retracing steps. Nat Med (2007) 2.39
Functional integration of transcriptional and RNA processing machineries. Curr Opin Cell Biol (2008) 2.38
MicroRNA-101 inhibited postinfarct cardiac fibrosis and improved left ventricular compliance via the FBJ osteosarcoma oncogene/transforming growth factor-β1 pathway. Circulation (2012) 2.36
The spectrum of SCN1A-related infantile epileptic encephalopathies. Brain (2007) 2.30
Sulforaphane-induced cell death in human prostate cancer cells is initiated by reactive oxygen species. J Biol Chem (2005) 2.28
Restoration of tumor suppressor miR-34 inhibits human p53-mutant gastric cancer tumorspheres. BMC Cancer (2008) 2.28
Crystal structure of the clathrin adaptor protein 1 core. Proc Natl Acad Sci U S A (2004) 2.28
BMP4 supports self-renewal of embryonic stem cells by inhibiting mitogen-activated protein kinase pathways. Proc Natl Acad Sci U S A (2004) 2.25
Crash and risky driving involvement among novice adolescent drivers and their parents. Am J Public Health (2011) 2.25
Mortality increases after massive exchange transfusion with older stored blood in canines with experimental pneumonia. Blood (2012) 2.22
Historical variations in mutation rate in an epidemic pathogen, Yersinia pestis. Proc Natl Acad Sci U S A (2012) 2.22
Helicobacter pylori immune escape is mediated by dendritic cell-induced Treg skewing and Th17 suppression in mice. Gastroenterology (2009) 2.22
Total insulin and IGF-I resistance in pancreatic beta cells causes overt diabetes. Nat Genet (2006) 2.21
The completion of the Mammalian Gene Collection (MGC). Genome Res (2009) 2.21
Enhanced striatal dopamine transmission and motor performance with LRRK2 overexpression in mice is eliminated by familial Parkinson's disease mutation G2019S. J Neurosci (2010) 2.20