FlyBase: the Drosophila database.


:FlyBase is a database of genetic and molecular data concerning Drosophila. FlyBase is maintained as a relational database (in Sybase). The scope of FlyBase includes: genes, alleles (and phenotypes), aberrations, pointers to sequence data, clones, stock lists, Drosophila workers and bibliographic references. FlyBase is also available on CD-ROM for Macintosh systems (Encyclopaedia of Drosophila).


Nucleic Acids Res


Nucleic acids research


Flybase Consortium.




Has Abstract


1996-01-01 00:00:00














  • Metabolic regulation of apoB mRNA editing is associated with phosphorylation of APOBEC-1 complementation factor.

    abstract::Apolipoprotein B (apoB) mRNA editing is a nuclear event that minimally requires the RNA substrate, APOBEC-1 and APOBEC-1 Complementation Factor (ACF). The co-localization of these macro-molecules within the nucleus and the modulation of hepatic apoB mRNA editing activity have been described following a variety of meta...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Lehmann DM,Galloway CA,Sowden MP,Smith HC

    更新日期:2006-07-04 00:00:00

  • Transcription in vivo directed by consensus sequences of E.coli promoters: their context heavily affects efficiencies and start sites.

    abstract::We studied in vivo transcription and gene expression directed by a series of synthetic sequences, bearing the consensus hexamer (CH) pair of E.coli promoters in various contexts. The results demonstrate that, for the contexts tested, the CH pair supports transcription activity and gene expression, whether the spacer l...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Jacquet MA,Reiss C

    更新日期:1990-03-11 00:00:00

  • Long non-coding RNAs function annotation: a global prediction method based on bi-colored networks.

    abstract::More and more evidences demonstrate that the long non-coding RNAs (lncRNAs) play many key roles in diverse biological processes. There is a critical need to annotate the functions of increasing available lncRNAs. In this article, we try to apply a global network-based strategy to tackle this issue for the first time. ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Guo X,Gao L,Liao Q,Xiao H,Ma X,Yang X,Luo H,Zhao G,Bu D,Jiao F,Shao Q,Chen R,Zhao Y

    更新日期:2013-01-01 00:00:00

  • NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis.

    abstract::The growing application of gene expression profiling demands powerful yet user-friendly bioinformatics tools to support systems-level data understanding. NetworkAnalyst was first released in 2014 to address the key need for interpreting gene expression data within the context of protein-protein interaction (PPI) netwo...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Zhou G,Soufan O,Ewald J,Hancock REW,Basu N,Xia J

    更新日期:2019-07-02 00:00:00

  • Searching algorithm for type IV secretion system effectors 1.0: a tool for predicting type IV effectors and exploring their genomic context.

    abstract::Type IV effectors (T4Es) are proteins produced by pathogenic bacteria to manipulate host cell gene expression and processes, divert the cell machinery for their own profit and circumvent the immune responses. T4Es have been characterized for some bacteria but many remain to be discovered. To help biologists identify p...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Meyer DF,Noroy C,Moumène A,Raffaele S,Albina E,Vachiéry N

    更新日期:2013-11-01 00:00:00

  • Importance of base-pair opening for mismatch recognition.

    abstract::Mismatch repair is a highly conserved cellular pathway responsible for repairing mismatched dsDNA. Errors are detected by the MutS enzyme, which most likely senses altered mechanical property of damaged dsDNA rather than a specific molecular pattern. While the curved shape of dsDNA in crystallographic MutS/DNA structu...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Bouchal T,Durník I,Illík V,Réblová K,Kulhánek P

    更新日期:2020-11-18 00:00:00

  • EK3D: an E. coli K antigen 3-dimensional structure database.

    abstract::A very high rate of multidrug resistance (MDR) seen among Gram-negative bacteria such as Escherichia, Klebsiella, Salmonella, Shigella, etc. is a major threat to public health and safety. One of the major virulent determinants of Gram-negative bacteria is capsular polysaccharide or K antigen located on the bacterial o...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Kunduru BR,Nair SA,Rathinavelan T

    更新日期:2016-01-04 00:00:00

  • Optimised ligation of oligonucleotides by thermal ligases: comparison of Thermus scotoductus and Rhodothermus marinus DNA ligases to other thermophilic ligases.

    abstract::We describe the characterisation of four thermo-stable NAD(+)-dependent DNA ligases, from Thermus thermophilus (Tth), Thermus scotoductus (Ts), Rhodothermus marinus (Rm) and Thermus aquaticus (Taq), by an assay which measures ligation rate and mismatch discrimination. Complete libraries of octa-, nona- and decanucleot...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Housby JN,Thorbjarnardóttir SH,Jónsson ZO,Southern EM

    更新日期:2000-02-01 00:00:00

  • Hemicatenanes form upon inhibition of DNA replication.

    abstract::Plasmid DNA incubated in interphase Xenopus egg extracts is normally assembled into chromatin and then into synthetic nuclei which undergo one round of regulated replication. During a study of restriction endonuclease cut plasmid replication intermediates (RIs) by the Brewer-Fangman 2D gel electrophoresis technique, w...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Lucas I,Hyrien O

    更新日期:2000-05-15 00:00:00

  • High-throughput chromatin information enables accurate tissue-specific prediction of transcription factor binding sites.

    abstract::In silico prediction of transcription factor binding sites (TFBSs) is central to the task of gene regulatory network elucidation. Genomic DNA sequence information provides a basis for these predictions, due to the sequence specificity of TF-binding events. However, DNA sequence alone is an impoverished source of infor...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Whitington T,Perkins AC,Bailey TL

    更新日期:2009-01-01 00:00:00

  • Developmentally regulated and erythroid-specific expression of the human embryonic beta-globin gene in transgenic mice.

    abstract::Transgenic mice have proven to be an effective expression system for studying developmental control of the human fetal and adult beta-globin genes. In the current work we are interested in developing the transgenic mouse system for the study of the human embryonic beta-globin gene, epsilon. An epsilon-globin gene cons...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Shih DM,Wall RJ,Shapiro SG

    更新日期:1990-09-25 00:00:00

  • PARP1 catalytic variants reveal branching and chain length-specific functions of poly(ADP-ribose) in cellular physiology and stress response.

    abstract::Poly(ADP-ribosyl)ation regulates numerous cellular processes like genome maintenance and cell death, thus providing protective functions but also contributing to several pathological conditions. Poly(ADP-ribose) (PAR) molecules exhibit a remarkable heterogeneity in chain lengths and branching frequencies, but the biol...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Aberle L,Krüger A,Reber JM,Lippmann M,Hufnagel M,Schmalz M,Trussina IREA,Schlesiger S,Zubel T,Schütz K,Marx A,Hartwig A,Ferrando-May E,Bürkle A,Mangerich A

    更新日期:2020-10-09 00:00:00

  • Sense and antisense transcription are associated with distinct chromatin architectures across genes.

    abstract::Genes from yeast to mammals are frequently subject to non-coding transcription of their antisense strand; however the genome-wide role for antisense transcription remains elusive. As transcription influences chromatin structure, we took a genome-wide approach to assess which chromatin features are associated with nasc...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Murray SC,Haenni S,Howe FS,Fischl H,Chocian K,Nair A,Mellor J

    更新日期:2015-09-18 00:00:00

  • Characterization of a novel T lymphocyte protein which binds to a site related to steroid/thyroid hormone receptor response elements in the negative regulatory sequence of the human immunodeficiency virus long terminal repeat.

    abstract::We have previously identified a T lymphocyte protein which binds to a site within the LTR of the human immunodeficiency virus type 1 (HIV-1) and exerts an inhibitory effect on virus gene expression. The palindromic site (site B) recognized by this protein is related to the palindromic binding sites of members of the s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Orchard K,Lang G,Collins M,Latchman D

    更新日期:1992-10-25 00:00:00

  • Genome-wide identification of genes directly regulated by the pleiotropic transcription factor Spx in Bacillus subtilis.

    abstract::The transcriptional regulator Spx plays a key role in maintaining the redox homeostasis of Bacillus subtilis cells exposed to disulfide stress. Defects in Spx were previously shown to lead to differential expression of numerous genes but direct and indirect regulatory effects could not be distinguished. Here we identi...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Rochat T,Nicolas P,Delumeau O,Rabatinová A,Korelusová J,Leduc A,Bessières P,Dervyn E,Krásny L,Noirot P

    更新日期:2012-10-01 00:00:00

  • Sce3, a suppressor of the Schizosaccharomyces pombe septation mutant cdc11, encodes a putative RNA-binding protein.

    abstract::In the fission yeast Schizosaccharomyces pombe, the cdc11 gene is required for the initiation of septum formation at the end of mitosis. The sce3 gene was cloned as a multi-copy suppressor of the heat-sensitive mutant cdc11-136. When over-expressed, it rescues all mutants of cdc11 and also a heat-sensitive allele of c...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Schmidt S,Hofmann K,Simanis V

    更新日期:1997-09-01 00:00:00

  • The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis.

    abstract::The Ribosomal Database Project (RDP-II) provides the research community with aligned and annotated rRNA gene sequences, along with analysis services and a phylogenetically consistent taxonomic framework for these data. Updated monthly, these services are made available through the RDP-II website (http://rdp.cme.msu.ed...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Cole JR,Chai B,Farris RJ,Wang Q,Kulam SA,McGarrell DM,Garrity GM,Tiedje JM

    更新日期:2005-01-01 00:00:00

  • PCDDB: new developments at the Protein Circular Dichroism Data Bank.

    abstract::The Protein Circular Dichroism Data Bank (PCDDB) has been in operation for more than 5 years as a public repository for archiving circular dichroism spectroscopic data and associated bioinformatics and experimental metadata. Since its inception, many improvements and new developments have been made in data display, se...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Whitmore L,Miles AJ,Mavridis L,Janes RW,Wallace BA

    更新日期:2017-01-04 00:00:00

  • Distinct functions of the RNA polymerase σ subunit region 3.2 in RNA priming and promoter escape.

    abstract::The σ subunit of bacterial RNA polymerase (RNAP) has been implicated in all steps of transcription initiation, including promoter recognition and opening, priming of RNA synthesis, abortive initiation and promoter escape. The post-promoter-recognition σ functions were proposed to depend on its conserved region σ3.2 th...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Pupov D,Kuzin I,Bass I,Kulbachinskiy A

    更新日期:2014-04-01 00:00:00

  • PubChem's BioAssay Database.

    abstract::PubChem ( is a public repository for biological activity data of small molecules and RNAi reagents. The mission of PubChem is to deliver free and easy access to all deposited data, and to provide intuitive data analysis tools. The PubChem BioAssay database currently contains 500,000 des...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Wang Y,Xiao J,Suzek TO,Zhang J,Wang J,Zhou Z,Han L,Karapetyan K,Dracheva S,Shoemaker BA,Bolton E,Gindulyte A,Bryant SH

    更新日期:2012-01-01 00:00:00

  • A transgenic mouse strain expressing four drug-selectable marker genes.

    abstract::Murine embryonic stem (ES) cells are commonly cultured on feeder layers of primary murine embryonic fibroblasts (MEFs). Because gene targeting experiments often involve sequential selection for multiple-drug resistance in single ES cell lines, we have developed a new mouse strain which represents an economical donor f...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Tucker KL,Wang Y,Dausman J,Jaenisch R

    更新日期:1997-09-15 00:00:00

  • Induction of double-strand breaks by S1 nuclease, mung bean nuclease and nuclease P1 in DNA containing abasic sites and nicks.

    abstract::Defined DNA substrates containing discrete abasic sites or paired abasic sites set 1, 3, 5 and 7 bases apart on opposite strands were constructed to examine the reactivity of S1, mung bean and P1 nucleases towards abasic sites. None of the enzymes acted on the substrate containing discrete abasic sites. Under conditio...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Chaudhry MA,Weinfeld M

    更新日期:1995-10-11 00:00:00

  • Electron microscopy of the reactions of anti-poly A. poly U and anti-poly I. poly C antibodies with synthetic polynucleotide complexes and natural nucleic acids.

    abstract::The reactions between purified anti-poly A. poly U and-poly I. poly C. antibodies (IgG and IgM), and synthetic and natural polynucleotides were visualized at the molecular level. This was achieved by the use of fine tungsten bidirectional shadowing of molecules adsorbed onto thin carbon films, combined with dark field...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Nahon-Merlin E,Delain E,Coulaud D,Lacour F

    更新日期:1980-04-25 00:00:00

  • Gramene 2018: unifying comparative genomics and pathway resources for plant research.

    abstract::Gramene ( is a knowledgebase for comparative functional analysis in major crops and model plant species. The current release, #54, includes over 1.7 million genes from 44 reference genomes, most of which were organized into 62,367 gene families through orthologous and paralogous gene classificat...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Tello-Ruiz MK,Naithani S,Stein JC,Gupta P,Campbell M,Olson A,Wei S,Preece J,Geniza MJ,Jiao Y,Lee YK,Wang B,Mulvaney J,Chougule K,Elser J,Al-Bader N,Kumari S,Thomason J,Kumar V,Bolser DM,Naamati G,Tapanari E,Fo

    更新日期:2018-01-04 00:00:00

  • Sequence-specific interaction of Hoechst 33258 with the minor groove of an adenine-tract DNA duplex studied in solution by 1H NMR spectroscopy.

    abstract::The interaction of Hoechst 33258 with the minor groove of the adenine-tract DNA duplex d(CTTTTGCAAAAG)2 has been studied in both D2O and H2O solutions by 1D and 2D 1H NMR spectroscopy. Thirty-one nuclear Overhauser effects between drug and nucleotide protons within the minor groove of the duplex, together with ring-cu...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Searle MS,Embrey KJ

    更新日期:1990-07-11 00:00:00

  • Eco Cyc: encyclopedia of Escherichia coli genes and metabolism.

    abstract::The EcoCyc database describes the genome and gene products of Escherichia coli, its metabolic and signal-transduction pathways, and its tRNAs. The database describes 4391 genes of E.coli, 695 enzymes encoded by a subset of these genes, 904 metabolic reactions that occur in E.coli, and the organization of these reactio...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Karp PD,Riley M,Paley SM,Pellegrini-Toole A,Krummenacker M

    更新日期:1999-01-01 00:00:00

  • A multi-modal coarse grained model of DNA flexibility mappable to the atomistic level.

    abstract::We present a new coarse grained method for the simulation of duplex DNA. The algorithm uses a generalized multi-harmonic model that can represent any multi-normal distribution of helical parameters, thus avoiding caveats of current mesoscopic models for DNA simulation and representing a breakthrough in the field. The ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Walther J,Dans PD,Balaceanu A,Hospital A,Bayarri G,Orozco M

    更新日期:2020-03-18 00:00:00

  • An efficient system for selectively altering genetic information within mRNAs.

    abstract::Site-directed RNA editing (SDRE) is a strategy to precisely alter genetic information within mRNAs. By linking the catalytic domain of the RNA editing enzyme ADAR to an antisense guide RNA, specific adenosines can be converted to inosines, biological mimics for guanosine. Previously, we showed that a genetically encod...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Montiel-González MF,Vallecillo-Viejo IC,Rosenthal JJ

    更新日期:2016-12-01 00:00:00

  • The conserved regulatory RNA RsaE down-regulates the arginine degradation pathway in Staphylococcus aureus.

    abstract::RsaE is a regulatory RNA highly conserved amongst Firmicutes that lowers the amount of mRNAs associated with the TCA cycle and folate metabolism. A search for new RsaE targets in Staphylococcus aureus revealed that in addition to previously described substrates, RsaE down-regulates several genes associated with argini...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Rochat T,Bohn C,Morvan C,Le Lam TN,Razvi F,Pain A,Toffano-Nioche C,Ponien P,Jacq A,Jacquet E,Fey PD,Gautheret D,Bouloc P

    更新日期:2018-09-28 00:00:00

  • Identification of an intronic enhancer that nullifies upstream repression of SPARC gene expression.

    abstract::The SPARC gene 5'flanking sequence has been shown to contain enhancer elements, but also negative control elements immediately upstream of the enhancer elements. Although these 5'enhancer elements are active in F9 and PYS-2 cells, their activities are nullified by the 5'repressor activity. In the present study we have...

    journal_title:Nucleic acids research

    pub_type: 杂志文章


    authors: Satyamoorthy K,Samulewicz SJ,Thornburg LD,Basu A,Howe CC

    更新日期:1997-08-01 00:00:00