Published in Methods Mol Biol on January 01, 2008
Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science (2010) 12.39
Ensembl Genomes: extending Ensembl across the taxonomic space. Nucleic Acids Res (2009) 5.09
Small RNAs derived from snoRNAs. RNA (2009) 3.04
Bioimage informatics for experimental biology. Annu Rev Biophys (2009) 3.04
Genome-wide analysis of promoter architecture in Drosophila melanogaster. Genome Res (2010) 2.29
RNA-seq: technical variability and sampling. BMC Genomics (2011) 2.19
The mouse Gene Expression Database (GXD): 2011 update. Nucleic Acids Res (2010) 2.07
WebAUGUSTUS--a web service for training AUGUSTUS and predicting genes in eukaryotes. Nucleic Acids Res (2013) 1.95
Genomic information infrastructure after the deluge. Genome Biol (2010) 1.89
FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system. Nucleic Acids Res (2010) 1.88
Comparative genomics of the odorant-binding and chemosensory protein gene families across the Arthropoda: origin and evolutionary history of the chemosensory system. Genome Biol Evol (2011) 1.82
Modulated modularity clustering as an exploratory tool for functional genomic inference. PLoS Genet (2009) 1.71
Sequencing of pooled DNA samples (Pool-Seq) uncovers complex dynamics of transposable element insertions in Drosophila melanogaster. PLoS Genet (2012) 1.59
RNAcode: robust discrimination of coding and noncoding regions in comparative sequence data. RNA (2011) 1.42
An Expressed Sequence Tag collection from the male antennae of the Noctuid moth Spodoptera littoralis: a resource for olfactory and pheromone detection research. BMC Genomics (2011) 1.37
High-throughput screening and small animal models, where are we? Br J Pharmacol (2010) 1.37
Local adaptation for body color in Drosophila americana. Heredity (Edinb) (2010) 1.33
Open semantic annotation of scientific publications using DOMEO. J Biomed Semantics (2012) 1.31
Phenotype ontologies for mouse and man: bridging the semantic gap. Dis Model Mech (2010) 1.28
The Drosophila fragile X mental retardation gene regulates sleep need. J Neurosci (2009) 1.25
Toward a quantitative theory of intrinsically disordered proteins and their function. Proc Natl Acad Sci U S A (2009) 1.25
Tripal: a construction toolkit for online genome databases. Database (Oxford) (2011) 1.24
Tripal v1.1: a standards-based toolkit for construction of online genetic and genomic databases. Database (Oxford) (2013) 1.21
Design and evaluation of genome-wide libraries for RNA interference screens. Genome Biol (2010) 1.20
A molecularly defined duplication set for the X chromosome of Drosophila melanogaster. Genetics (2010) 1.17
Modification of gene duplicability during the evolution of protein interaction network. PLoS Comput Biol (2011) 1.05
Role of DUOX in gut inflammation: lessons from Drosophila model of gut-microbiota interactions. Front Cell Infect Microbiol (2014) 1.03
Identification of novel non-coding RNAs using profiles of short sequence reads from next generation sequencing data. BMC Genomics (2010) 1.03
A microfluidic device for whole-animal drug screening using electrophysiological measures in the nematode C. elegans. Lab Chip (2012) 1.01
Linking proteins to signaling pathways for experiment design and evaluation. PLoS One (2012) 0.98
Codon usage is associated with the evolutionary age of genes in metazoan genomes. BMC Evol Biol (2009) 0.98
An evolutionary consequence of dosage compensation on Drosophila melanogaster female X-chromatin structure? BMC Genomics (2010) 0.95
Gene alterations at Drosophila inversion breakpoints provide prima facie evidence for natural selection as an explanation for rapid chromosomal evolution. BMC Genomics (2012) 0.95
Semantic integration of data on transcriptional regulation. Bioinformatics (2010) 0.94
Sox100B, a Drosophila group E Sox-domain gene, is required for somatic testis differentiation. Sex Dev (2009) 0.92
Systematic analysis of experimental phenotype data reveals gene functions. PLoS One (2013) 0.92
GnpIS: an information system to integrate genetic and genomic data from plants and fungi. Database (Oxford) (2013) 0.91
GLAD: an Online Database of Gene List Annotation for Drosophila. J Genomics (2015) 0.91
An integrative, translational approach to understanding rare and orphan genetically based diseases. Interface Focus (2013) 0.90
Comparative genomics of eukaryotic small nucleolar RNAs reveals deep evolutionary ancestry amidst ongoing intragenomic mobility. BMC Evol Biol (2012) 0.90
Behavioral barcoding in the cloud: embracing data-intensive digital phenotyping in neuropharmacology. Trends Biotechnol (2012) 0.90
pubmed2ensembl: a resource for mining the biological literature on genes. PLoS One (2011) 0.89
Microgravity simulation by diamagnetic levitation: effects of a strong gradient magnetic field on the transcriptional profile of Drosophila melanogaster. BMC Genomics (2012) 0.89
Newt-omics: a comprehensive repository for omics data from the newt Notophthalmus viridescens. Nucleic Acids Res (2011) 0.89
Domain specificity of MAP3K family members, MLK and Tak1, for JNK signaling in Drosophila. Genetics (2014) 0.89
Neisseria Base: a comparative genomics database for Neisseria meningitidis. Database (Oxford) (2011) 0.88
Evolution of a genomic regulatory domain: the role of gene co-option and gene duplication in the Enhancer of split complex. Genome Res (2010) 0.87
RNAi screening in Drosophila cells and in vivo. Methods (2014) 0.87
Signalogs: orthology-based identification of novel signaling pathway components in three metazoans. PLoS One (2011) 0.85
Understanding kidney disease: toward the integration of regulatory networks across species. Semin Nephrol (2010) 0.85
Computational tools for comparative phenomics: the role and promise of ontologies. Mamm Genome (2012) 0.85
Fife, a Drosophila Piccolo-RIM homolog, promotes active zone organization and neurotransmitter release. J Neurosci (2012) 0.85
SOBA: sequence ontology bioinformatics analysis. Nucleic Acids Res (2010) 0.85
Automatically transforming pre- to post-composed phenotypes: EQ-lising HPO and MP. J Biomed Semantics (2013) 0.84
Impact of gene copy number variation on anesthesia in Drosophila melanogaster. Anesthesiology (2009) 0.84
Isolation, annotation and applications of expressed sequence tags from the olive fly, Bactrocera oleae. Mol Genet Genomics (2010) 0.83
Automatically identifying and annotating mouse embryo gene expression patterns. Bioinformatics (2011) 0.83
WebScipio: Reconstructing alternative splice variants of eukaryotic proteins. Nucleic Acids Res (2013) 0.83
The Genetic Basis of Pigmentation Differences Within and Between Drosophila Species. Curr Top Dev Biol (2016) 0.82
FGFRL1 is a neglected putative actor of the FGF signalling pathway present in all major metazoan phyla. BMC Evol Biol (2009) 0.82
Programmed ribosomal frameshifting in the expression of the regulator of intestinal stem cell proliferation, adenomatous polyposis coli (APC). RNA Biol (2011) 0.81
Insertional mutagenesis screening identifies the zinc finger homeodomain 2 (zfh2) gene as a novel factor required for embryonic leg development in Tribolium castaneum. Dev Genes Evol (2009) 0.81
diArk--the database for eukaryotic genome and transcriptome assemblies in 2014. Nucleic Acids Res (2014) 0.81
Anatomy ontologies and potential users: bridging the gap. J Biomed Semantics (2011) 0.80
Expression profile and gene age jointly shaped the genome-wide distribution of premature termination codons in a Drosophila melanogaster population. Mol Biol Evol (2014) 0.80
Evolutionary origin and genomic organisation of runt-domain containing genes in arthropods. BMC Genomics (2008) 0.80
JuncDB: an exon-exon junction database. Nucleic Acids Res (2015) 0.80
RNALocate: a resource for RNA subcellular localizations. Nucleic Acids Res (2016) 0.80
Evolution of the sex-lethal gene in insects and origin of the sex-determination system in Drosophila. J Mol Evol (2013) 0.78
ContDist: a tool for the analysis of quantitative gene and promoter properties. BMC Bioinformatics (2009) 0.78
The Genomic Basis of Postponed Senescence in Drosophila melanogaster. PLoS One (2015) 0.78
Defining the Schistosoma haematobium kinome enables the prediction of essential kinases as anti-schistosome drug targets. Sci Rep (2015) 0.78
Drosophila SAF-B links the nuclear matrix, chromosomes, and transcriptional activity. PLoS One (2010) 0.77
Using association rule mining to determine promising secondary phenotyping hypotheses. Bioinformatics (2014) 0.77
Using VisANT to Analyze Networks. Curr Protoc Bioinformatics (2014) 0.77
DNA sequence templates adjacent nucleosome and ORC sites at gene amplification origins in Drosophila. Nucleic Acids Res (2015) 0.77
The microtubule catastrophe promoter Sentin delays stable kinetochore-microtubule attachment in oocytes. J Cell Biol (2015) 0.77
Discovering non-coding RNA elements in Drosophila 3' untranslated regions. Int J Bioinform Res Appl (2014) 0.75
FlyPhy: a phylogenomic analysis platform for Drosophila genes and gene families. BMC Bioinformatics (2009) 0.75
Identification and characterization of proteins involved in nuclear organization using Drosophila GFP protein trap lines. PLoS One (2013) 0.75
The Female Post-Mating Response Requires Genes Expressed in the Secondary Cells of the Male Accessory Gland in Drosophila melanogaster. Genetics (2016) 0.75
Using FlyBase, a Database of Drosophila Genes and Genomes. Methods Mol Biol (2016) 0.75
Understanding the DNA damage response in order to achieve desired gene editing outcomes in mosquitoes. Chromosome Res (2015) 0.75
The FlyBase database of the Drosophila genome projects and community literature. Nucleic Acids Res (2003) 15.27
FlyBase: enhancing Drosophila Gene Ontology annotations. Nucleic Acids Res (2008) 12.15
FlyBase: genes and gene models. Nucleic Acids Res (2005) 11.15
A Chado case study: an ontology-based modular schema for representing genome-associated biological information. Bioinformatics (2007) 8.47
The FlyBase database of the Drosophila genome projects and community literature. Nucleic Acids Res (2002) 7.48
FlyBase: genomes by the dozen. Nucleic Acids Res (2006) 6.96
FlyBase 101--the basics of navigating FlyBase. Nucleic Acids Res (2011) 5.46
FlyBase: integration and improvements to query tools. Nucleic Acids Res (2007) 5.14
FlyBase 102--advanced approaches to interrogating FlyBase. Nucleic Acids Res (2013) 3.46
FlyBase: introduction of the Drosophila melanogaster Release 6 reference genome assembly and large-scale migration of genome annotations. Nucleic Acids Res (2014) 3.12
Directly e-mailing authors of newly published papers encourages community curation. Database (Oxford) (2012) 1.73
FlyBase: establishing a Gene Group resource for Drosophila melanogaster. Nucleic Acids Res (2015) 1.72
The Drosophila melanogaster PeptideAtlas facilitates the use of peptide data for improved fly proteomics and genome annotation. BMC Bioinformatics (2009) 1.06
FlyBase portals to human disease research using Drosophila models. Dis Model Mech (2016) 0.92
Opportunities for text mining in the FlyBase genetic literature curation workflow. Database (Oxford) (2012) 0.86
tagtog: interactive and text-mining-assisted annotation of gene mentions in PLOS full-text articles. Database (Oxford) (2014) 0.83
Gene Model Annotations for Drosophila melanogaster: Impact of High-Throughput Data. G3 (Bethesda) (2015) 0.83
Gene Model Annotations for Drosophila melanogaster: The Rule-Benders. G3 (Bethesda) (2015) 0.80
Using FlyBase, a Database of Drosophila Genes and Genomes. Methods Mol Biol (2016) 0.75
Exploring FlyBase Data Using QuickSearch. Curr Protoc Bioinformatics (2016) 0.75
Gene2Function: An Integrated Online Resource for Gene Function Discovery. G3 (Bethesda) (2017) 0.75