| scholarly article | Q13442814 |
| P6179 | Dimensions Publication ID | 1043448162 |
| P356 | DOI | 10.1038/459927A |
| P932 | PMC publication ID | 2843545 |
| P698 | PubMed publication ID | 19536255 |
| P5875 | ResearchGate publication ID | 26301182 |
| P50 | author | Lincoln Stein | Q6551037 |
| Mark Bender Gerstein | Q6766711 | ||
| Steven Russell | Q42277880 | ||
| Eric C Lai | Q52431492 | ||
| Susan E. Celniker | Q64871649 | ||
| Gary H. Karpen | Q64871727 | ||
| Jason D Lieb | Q109084133 | ||
| Steven Henikoff | Q28033746 | ||
| Manolis Kellis | Q28050827 | ||
| Michael P. Snyder | Q28924918 | ||
| Gos Micklem | Q30347699 | ||
| P2093 | author name string | Kevin P White | |
| David M MacAlpine | |||
| Fabio Piano | |||
| Robert H Waterston | |||
| Kristin C Gunsalus | |||
| Laura A L Dillon | |||
| modENCODE Consortium | |||
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| P433 | issue | 7249 | |
| P407 | language of work or name | English | Q1860 |
| P304 | page(s) | 927-930 | |
| P577 | publication date | 2009-06-01 | |
| P1433 | published in | Nature | Q180445 |
| P1476 | title | Unlocking the secrets of the genome | |
| P478 | volume | 459 |
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| Q34727273 | Integrative genomic analysis of CREB defines a critical role for transcription factor networks in mediating the fed/fasted switch in liver |
| Q30571380 | InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data |
| Q92875181 | Interplay between small RNA pathways shapes chromatin landscapes in C. elegans |
| Q98461175 | Interpretation of psychiatric genome-wide association studies with multispecies heterogeneous functional genomic data integration |
| Q35502599 | Introduction to bioinformatics: sequencing technology |
| Q34055996 | Intronic L1 retrotransposons and nested genes cause transcriptional interference by inducing intron retention, exonization and cryptic polyadenylation |
| Q34405062 | Itga2b regulation at the onset of definitive hematopoiesis and commitment to differentiation |
| Q35305993 | JAK/Stat signaling regulates heart precursor diversification in Drosophila |
| Q47847250 | Knockdown of wfs1, a fly homolog of Wolfram syndrome 1, in the nervous system increases susceptibility to age- and stress-induced neuronal dysfunction and degeneration in Drosophila. |
| Q35669166 | LCGbase: A Comprehensive Database for Lineage-Based Co-regulated Genes |
| Q34802135 | LIN-28 co-transcriptionally binds primary let-7 to regulate miRNA maturation in Caenorhabditis elegans |
| Q36143067 | LMethyR-SVM: Predict Human Enhancers Using Low Methylated Regions based on Weighted Support Vector Machines |
| Q37461570 | LTR-mediated retroposition as a mechanism of RNA-based duplication in metazoans |
| Q89916726 | Lamina-Dependent Stretching and Unconventional Chromosome Compartments in Early C. elegans Embryos |
| Q41938134 | Learning the transcriptional regulatory code |
| Q34149240 | Lineage programming: navigating through transient regulatory states via binary decisions |
| Q46304748 | Lineage-specific chromatin signatures reveal a regulator of lipid metabolism in microalgae |
| Q28602218 | Linking Genes to Cardiovascular Diseases: Gene Action and Gene-Environment Interactions |
| Q34256386 | Linking the epigenome to the genome: correlation of different features to DNA methylation of CpG islands |
| Q64064302 | Loss of a proteostatic checkpoint in intestinal stem cells contributes to age-related epithelial dysfunction |
| Q21184004 | MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets |
| Q34974745 | MITIE: Simultaneous RNA-Seq-based transcript identification and quantification in multiple samples |
| Q33809896 | MM-ChIP enables integrative analysis of cross-platform and between-laboratory ChIP-chip or ChIP-seq data |
| Q92330174 | ManiNetCluster: a novel manifold learning approach to reveal the functional links between gene networks |
| Q46558029 | Mapping genome-wide transcription-factor binding sites using DAP-seq. |
| Q41018120 | Mapping the complexity of transcription control in higher eukaryotes |
| Q91866548 | Maternal Ribosomes Are Sufficient for Tissue Diversification during Embryonic Development in C. elegans |
| Q38029323 | Mechanism of generation of therapy related leukemia in response to anti-topoisomerase II agents. |
| Q34412274 | Meiosis: making a break for it |
| Q52846361 | Meiotic recombination is suppressed near the histone-defined border of euchromatin and heterochromatin on chromosome 2L of Drosophila melanogaster. |
| Q89810573 | Meta-analysis of honey bee neurogenomic response links Deformed wing virus type A to precocious behavioral maturation |
| Q34182683 | Methods and strategies for gene structure curation in WormBase |
| Q34055387 | MicroRNA expression and regulation in human, chimpanzee, and macaque brains |
| Q35636600 | MicroRNA-Dependent Transcriptional Silencing of Transposable Elements in Drosophila Follicle Cells |
| Q21245309 | Microarrays, deep sequencing and the true measure of the transcriptome |
| Q92052901 | Mitochondrial fragmentation drives selective removal of deleterious mtDNA in the germline |
| Q34794970 | Modeling exon expression using histone modifications |
| Q43984796 | Molecular biology: A fly in the face of genomics |
| Q46891558 | More Drosophila enteroendocrine peptides: Orcokinin B and the CCHamides 1 and 2. |
| Q21090180 | Most "dark matter" transcripts are associated with known genes |
| Q39628462 | Multidimensional regulation of gene expression in the C. elegans embryo |
| Q36545027 | Multiple cis-elements and trans-acting factors regulate dynamic spatio-temporal transcription of let-7 in Caenorhabditis elegans |
| Q34803562 | Multiplexed Illumina sequencing libraries from picogram quantities of DNA |
| Q24611784 | NCBI Epigenomics: a new public resource for exploring epigenomic data sets |
| Q34495215 | NCBI Epigenomics: what's new for 2013. |
| Q35910335 | NEAT: a framework for building fully automated NGS pipelines and analyses |
| Q30779594 | Navigating and mining modENCODE data |
| Q37628791 | Neprilysins: an evolutionarily conserved family of metalloproteases that play important roles in reproduction in Drosophila |
| Q38743808 | Nerve-racking - Apoptotic and non-apoptotic roles of caspases in the nervous system of Drosophila |
| Q37001113 | Neurodegeneration in drop-dead mutant drosophila melanogaster is associated with the respiratory system but not with Hypoxia |
| Q28730711 | Next-generation genomics: an integrative approach |
| Q30872605 | Non-referenced genome assembly from epigenomic short-read data |
| Q34590386 | Nuclear hormone receptors in nematodes: evolution and function |
| Q37029720 | Nuclear organization and genome function |
| Q34024543 | Observing copepods through a genomic lens |
| Q34140621 | P-element homing is facilitated by engrailed polycomb-group response elements in Drosophila melanogaster. |
| Q30370477 | Parallel functional changes in independent testis-specific duplicates of Aldehyde dehydrogenase in Drosophila |
| Q35746809 | Partitioning transcript variation in Drosophila: abundance, isoforms, and alleles |
| Q36754746 | Patterning and regulatory associations of DNA methylation are mirrored by histone modifications in insects |
| Q39334887 | Patterning of sexually dimorphic neurogenesis in the caenorhabditis elegans ventral cord by Hox and TALE homeodomain transcription factors |
| Q90567152 | Patterns and Constraints in the Evolution of Sperm Individualization Genes in Insects, with an Emphasis on Beetles |
| Q33893293 | PeakRanger: a cloud-enabled peak caller for ChIP-seq data |
| Q33887832 | Phased diploid genome assembly with single-molecule real-time sequencing. |
| Q37075101 | Phosphatidylcholine synthesis for lipid droplet expansion is mediated by localized activation of CTP:phosphocholine cytidylyltransferase |
| Q34062109 | Phylogenetic analyses and characterization of RNase X25 from Drosophila melanogaster suggest a conserved housekeeping role and additional functions for RNase T2 enzymes in protostomes |
| Q51164367 | Piercing the dark matter: bioinformatics of long-range sequencing and mapping. |
| Q34548233 | Plasticity in patterns of histone modifications and chromosomal proteins in Drosophila heterochromatin |
| Q28534759 | Pleiohomeotic interacts with the core transcription elongation factor Spt5 to regulate gene expression in Drosophila |
| Q36245121 | Polarized Rac-dependent protrusions drive epithelial intercalation in the embryonic epidermis of C. elegans |
| Q35114443 | PolyaPeak: detecting transcription factor binding sites from ChIP-seq using peak shape information |
| Q34472112 | Polycomb group proteins bind an engrailed PRE in both the "ON" and "OFF" transcriptional states of engrailed |
| Q42651287 | Polyglutamine Atrophin provokes neurodegeneration in Drosophila by repressing fat. |
| Q56531068 | Pooled genome-wide CRISPR screening for basal and context-specific fitness gene essentiality in cells |
| Q34510126 | Predicting spatial and temporal gene expression using an integrative model of transcription factor occupancy and chromatin state |
| Q33777987 | Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data |
| Q36093899 | Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks |
| Q33691378 | Preferential Re-Replication of Drosophila Heterochromatin in the Absence of Geminin |
| Q30957081 | Probing long-range interactions by extracting free energies from genome-wide chromosome conformation capture data. |
| Q34077027 | Protein composition of interband regions in polytene and cell line chromosomes of Drosophila melanogaster |
| Q36023310 | Protein landscape at Drosophila melanogaster telomere-associated sequence repeats. |
| Q100762049 | Proteomic analysis of Drosophila CLOCK complexes identifies rhythmic interactions with SAGA and Tip60 complex component NIPPED-A |
| Q36226039 | Proteomic and functional genomic landscape of receptor tyrosine kinase and ras to extracellular signal-regulated kinase signaling |
| Q35992049 | Proximity ligation assays of protein and RNA interactions in the male-specific lethal complex on Drosophila melanogaster polytene chromosomes |
| Q35198333 | Quadruplex formation is necessary for stable PNA invasion into duplex DNA of BCL2 promoter region |
| Q40115079 | Quantification of gene-specific methylation of DNMT3B and MTHFR using sequenom EpiTYPER®. |
| Q42602150 | Quantitative analysis of DNA methylation at all human imprinted regions reveals preservation of epigenetic stability in adult somatic tissue. |
| Q57029686 | Quantitative proteomics identification of seminal fluid proteins in male |
| Q36084332 | REC-1 and HIM-5 distribute meiotic crossovers and function redundantly in meiotic double-strand break formation in Caenorhabditis elegans. |
| Q24607002 | REDfly v3.0: toward a comprehensive database of transcriptional regulatory elements in Drosophila |
| Q37417866 | RNA-binding profiles of Drosophila CPEB proteins Orb and Orb2. |
| Q33924548 | RNA-seq: technical variability and sampling. |
| Q46942610 | RPN-6 determines C. elegans longevity under proteotoxic stress conditions |
| Q50034263 | Re-Arrangements in the Cytoplasmic Distribution of Small RNAs Following the Maternal-to-Zygotic Transition in Drosophila Embryos |
| Q35888902 | Re-programming of C. elegans male epidermal precursor fates by Wnt, Hox, and LIN-12/Notch activities |
| Q40374649 | Recent insights into Groucho co-repressor recruitment and function |
| Q31003486 | Reconstruction of composite regulator-target splicing networks from high-throughput transcriptome data |
| Q26996484 | Regulated functional alternative splicing in Drosophila |
| Q35044834 | Regulation of mechanosensation in C. elegans through ubiquitination of the MEC-4 mechanotransduction channel |
| Q42429601 | Regulatory analysis of the C. elegans genome with spatiotemporal resolution |
| Q37347788 | Repeated Duplication of Argonaute2 Is Associated with Strong Selection and Testis Specialization in Drosophila. |
| Q27334718 | Repression of germline RNAi pathways in somatic cells by retinoblastoma pathway chromatin complexes |
| Q60923509 | Reveal cell type-specific regulatory elements and their characterized histone code classes via a hidden Markov model |
| Q34168361 | Roles of major facilitator superfamily transporters in phosphate response in Drosophila |
| Q36180291 | SAYP and Brahma are important for 'repressive' and 'transient' Pol II pausing |
| Q34502036 | SEA: a super-enhancer archive |
| Q34217607 | SIN3 is critical for stress resistance and modulates adult lifespan |
| Q40200523 | SLC46 Family Transporters Facilitate Cytosolic Innate Immune Recognition of Monomeric Peptidoglycans |
| Q58595457 | SLIC-CAGE: high-resolution transcription start site mapping using nanogram-levels of total RNA |
| Q35101944 | SPIC: a novel similarity metric for comparing transcription factor binding site motifs based on information contents |
| Q29616757 | Saccharomyces Genome Database: the genomics resource of budding yeast |
| Q37856873 | Selectable genetic markers for nematode transgenesis. |
| Q57477096 | Selective interactions between diverse STEs organize the ANT-C Hox cluster |
| Q38884770 | Sex combs reduced (Scr) regulatory region of Drosophila revisited |
| Q36593455 | Sex-biased networks and nodes of sexually antagonistic conflict in Drosophila |
| Q47936566 | Sexual selection shapes development and maturation rates in Drosophila |
| Q46322055 | Silencing of Repetitive DNA Is Controlled by a Member of an Unusual Caenorhabditis elegans Gene Family |
| Q52586071 | Similarity in replication timing between polytene and diploid cells is associated with the organization of the Drosophila genome. |
| Q42324193 | Simultaneous Transcriptional and Epigenomic Profiling from Specific Cell Types within Heterogeneous Tissues In Vivo |
| Q37534130 | Simultaneous dimension reduction and adjustment for confounding variation |
| Q64255703 | Small Segmental Duplications in Drosophila-High Rate of Emergence and Elimination |
| Q35945807 | Snoo and Dpp Act as Spatial and Temporal Regulators Respectively of Adult Progenitor Cells in the Drosophila Trachea |
| Q34089210 | Sparse linear modeling of next-generation mRNA sequencing (RNA-Seq) data for isoform discovery and abundance estimation |
| Q42700397 | Specificity of Notch pathway activation: twist controls the transcriptional output in adult muscle progenitors |
| Q64106584 | Sperm-Leucylaminopeptidases are required for male fertility as structural components of mitochondrial paracrystalline material in Drosophila melanogaster sperm |
| Q92013123 | Structural and Functional Dissection of the 5' Region of the Notch Gene in Drosophila melanogaster |
| Q38185356 | Synthetic chromatin approaches to probe the writing and erasing of histone modifications |
| Q33982410 | Synthetic spike-in standards for RNA-seq experiments |
| Q37396432 | Systematic comparison of monoclonal versus polyclonal antibodies for mapping histone modifications by ChIP-seq |
| Q34241267 | Systematic evaluation of factors influencing ChIP-seq fidelity |
| Q37630764 | Systems biology from a yeast omics perspective |
| Q33575083 | Tau promotes neurodegeneration through global chromatin relaxation |
| Q52782477 | Tethering of SUUR and HP1 proteins results in delayed replication of euchromatic regions in Drosophila melanogaster polytene chromosomes. |
| Q27316318 | The Caenorhabditis elegans Myc-Mondo/Mad complexes integrate diverse longevity signals |
| Q36444189 | The Central Region of the Drosophila Co-repressor Groucho as a Regulatory Hub. |
| Q35034322 | The Drosophila eve insulator Homie promotes eve expression and protects the adjacent gene from repression by polycomb spreading |
| Q33645894 | The Drosophila homolog of the mammalian imprint regulator, CTCF, maintains the maternal genomic imprint in Drosophila melanogaster |
| Q38815370 | The FANTOM5 Computation Ecosystem: Genomic Information Hub for Promoters and Active Enhancers. |
| Q36677056 | The Female Post-Mating Response Requires Genes Expressed in the Secondary Cells of the Male Accessory Gland in Drosophila melanogaster |
| Q36518592 | The Gas2 family protein Pigs is a microtubule +TIP that affects cytoskeleton organisation |
| Q35976728 | The Genetic Architecture of Natural Variation in Recombination Rate in Drosophila melanogaster |
| Q35233511 | The Groucho co-repressor is primarily recruited to local target sites in active chromatin to attenuate transcription |
| Q36088755 | The Landscape of A-to-I RNA Editome Is Shaped by Both Positive and Purifying Selection |
| Q35780124 | The MOF-containing NSL complex associates globally with housekeeping genes, but activates only a defined subset |
| Q64264464 | The NCATS BioPlanet - An Integrated Platform for Exploring the Universe of Cellular Signaling Pathways for Toxicology, Systems Biology, and Chemical Genomics |
| Q36664851 | The Neuronal Kinesin UNC-104/KIF1A Is a Key Regulator of Synaptic Aging and Insulin Signaling-Regulated Memory |
| Q36359414 | The Ski2-family helicase Obelus regulates Crumbs alternative splicing and cell polarity |
| Q27499446 | The case for cloud computing in genome informatics |
| Q35170671 | The complex contributions of genetics and nutrition to immunity in Drosophila melanogaster |
| Q21168558 | The developmental expression dynamics of Drosophila melanogaster transcription factors |
| Q29617262 | The developmental transcriptome of Drosophila melanogaster |
| Q37718645 | The dynamic architectural and epigenetic nuclear landscape: developing the genomic almanac of biology and disease. |
| Q35803336 | The epigenome in early vertebrate development. |
| Q30561877 | The evolutionarily conserved protein CG9186 is associated with lipid droplets, required for their positioning and for fat storage |
| Q36341429 | The evolutionary landscape of intergenic trans-splicing events in insects |
| Q33746582 | The four aldehyde oxidases of Drosophila melanogaster have different gene expression patterns and enzyme substrate specificities |
| Q50753040 | The function of intragenic DNA methylation: insights from insect epigenomes. |
| Q36642232 | The genetic architecture of degenerin/epithelial sodium channels in Drosophila |
| Q30391612 | The histone demethylase dKDM5/LID interacts with the SIN3 histone deacetylase complex and shares functional similarities with SIN3. |
| Q35693513 | The influence of assortativity on the robustness of signal-integration logic in gene regulatory networks |
| Q37958962 | The nuclear lamina and heterochromatin: a complex relationship |
| Q34733633 | The secretory pathway calcium ATPase PMR-1/SPCA1 has essential roles in cell migration during Caenorhabditis elegans embryonic development |
| Q34548309 | The transcriptional diversity of 25 Drosophila cell lines |
| Q34499471 | Tissue-specific regulation of chromatin insulator function |
| Q38690340 | Trans-splicing enhances translational efficiency in C. elegans. |
| Q30276192 | Transcription factors GAF and HSF act at distinct regulatory steps to modulate stress-induced gene activation |
| Q35222700 | Transcription initiation from within P elements generates hypomorphic mutations in Drosophila melanogaster |
| Q33797842 | Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level |
| Q36846342 | Transcription termination between polo and snap, two closely spaced tandem genes of D. melanogaster. |
| Q47129438 | Transcriptional control of non-apoptotic developmental cell death in C. elegans |
| Q36343296 | Transcriptional pausing controls a rapid antiviral innate immune response in Drosophila |
| Q34228535 | Transcriptome responses of insect fat body cells to tissue culture environment |
| Q34032156 | Transvection is common throughout the Drosophila genome |
| Q40407654 | Trithorax regulates systemic signaling during Drosophila imaginal disc regeneration. |
| Q27309286 | TrpA1 Regulates Defecation of Food-Borne Pathogens under the Control of the Duox Pathway |
| Q91917092 | Two modes of transvection at the eyes absent gene of Drosophila demonstrate plasticity in transcriptional regulatory interactions in cis and in trans |
| Q39197800 | Two new and distinct roles for Drosophila Argonaute-2 in the nucleus: alternative pre-mRNA splicing and transcriptional repression. |
| Q40275213 | Underrepresentation of active histone modification marks in evolutionarily young genes |
| Q41958694 | Unveiling combinatorial regulation through the combination of ChIP information and in silico cis-regulatory module detection. |
| Q30584300 | Using the Drosophila melanogaster D17-c3 cell culture system to study cell motility |
| Q26865379 | Using the ENCODE Resource for Functional Annotation of Genetic Variants |
| Q36344744 | VAMP3/Syb and YKT6 are required for the fusion of constitutive secretory carriers with the plasma membrane. |
| Q90264252 | Vitellogenins - Yolk Gene Function and Regulation in Caenorhabditis elegans |
| Q36576333 | Where gene discovery turns into systems biology: genome-scale RNAi screens in Drosophila |
| Q34514538 | Whole-genome expression analysis in the third instar larval midgut of Drosophila melanogaster |
| Q37630984 | Why are we where we are? Understanding replication origins and initiation sites in eukaryotes using ChIP-approaches. |
| Q36209122 | Why is DNA methylation of Igf2 CpG island shore affected during ageing? |
| Q37197823 | Widespread evidence of cooperative DNA binding by transcription factors in Drosophila development |
| Q38243755 | Wisdom from the fly. |
| Q46985455 | WormBase 2017: molting into a new stage. |
| Q36895137 | WormBase: Annotating many nematode genomes |
| Q39493266 | Wormpath: searching for molecular interaction networks in Caenorhabditis elegans |
| Q55362576 | aaquetzalli is required for epithelial cell polarity and neural tissue formation in Drosophila. |
| Q27311556 | acal is a long non-coding RNA in JNK signaling in epithelial shape changes during drosophila dorsal closure |
| Q38908210 | bHLH proteins involved in Drosophila neurogenesis are mutually regulated at the level of stability |
| Q30572830 | chroGPS, a global chromatin positioning system for the functional analysis and visualization of the epigenome |
| Q48299228 | dUTPase expression correlates with cell division potential in Drosophila melanogaster. |
| Q37162976 | flyDIVaS: A Comparative Genomics Resource for Drosophila Divergence and Selection. |
| Q31082544 | fussel (fuss)--A negative regulator of BMP signaling in Drosophila melanogaster |
| Q34044477 | metaseq: a Python package for integrative genome-wide analysis reveals relationships between chromatin insulators and associated nuclear mRNA. |
| Q24615914 | miRBase: integrating microRNA annotation and deep-sequencing data |
| Q34073658 | modMine: flexible access to modENCODE data |
| Q52623895 | pDHS-ELM: computational predictor for plant DNase I hypersensitive sites based on extreme learning machines. |
| Q34581018 | siRNAs from an X-linked satellite repeat promote X-chromosome recognition in Drosophila melanogaster |
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