DrugCentral: online drug compendium.

Abstract:

:DrugCentral (http://drugcentral.org) is an open-access online drug compendium. DrugCentral integrates structure, bioactivity, regulatory, pharmacologic actions and indications for active pharmaceutical ingredients approved by FDA and other regulatory agencies. Monitoring of regulatory agencies for new drugs approvals ensures the resource is up-to-date. DrugCentral integrates content for active ingredients with pharmaceutical formulations, indexing drugs and drug label annotations, complementing similar resources available online. Its complementarity with other online resources is facilitated by cross referencing to external resources. At the molecular level, DrugCentral bridges drug-target interactions with pharmacological action and indications. The integration with FDA drug labels enables text mining applications for drug adverse events and clinical trial information. Chemical structure overlap between DrugCentral and five online drug resources, and the overlap between DrugCentral FDA-approved drugs and their presence in four different chemical collections, are discussed. DrugCentral can be accessed via the web application or downloaded in relational database format.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Ursu O,Holmes J,Knockel J,Bologa CG,Yang JJ,Mathias SL,Nelson SJ,Oprea TI

doi

10.1093/nar/gkw993

subject

Has Abstract

pub_date

2017-01-04 00:00:00

pages

D932-D939

issue

D1

eissn

0305-1048

issn

1362-4962

pii

gkw993

journal_volume

45

pub_type

杂志文章
  • Different dynamics in nuclear entry of subunits of the repair/transcription factor TFIIH.

    abstract::We report here the different ways in which four subunits of the basal transcription/repair factor TFIIH (XPB, XPD, p62 and p44) and the damage recognition XPC repair protein can enter the nucleus. We examined their nuclear localization by transiently expressing the gene products tagged with the enhanced green fluoresc...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/29.7.1574

    authors: Santagati F,Botta E,Stefanini M,Pedrini AM

    更新日期:2001-04-01 00:00:00

  • Functional analysis and identification of cis-regulatory elements of human chromosome 21 gene promoters.

    abstract::Given the inherent limitations of in silico studies relying solely on DNA sequence analysis, the functional characterization of mammalian promoters and associated cis-regulatory elements requires experimental support, which demands cloning and analysis of putative promoter regions. Focusing on human chromosome 21, we ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq402

    authors: Warnatz HJ,Querfurth R,Guerasimova A,Cheng X,Haas SA,Hufton AL,Manke T,Vanhecke D,Nietfeld W,Vingron M,Janitz M,Lehrach H,Yaspo ML

    更新日期:2010-10-01 00:00:00

  • DSSPcont: Continuous secondary structure assignments for proteins.

    abstract::The DSSP program automatically assigns the secondary structure for each residue from the three-dimensional co-ordinates of a protein structure to one of eight states. However, discrete assignments are incomplete in that they cannot capture the continuum of thermal fluctuations. Therefore, DSSPcont (http://cubic.bioc.c...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkg626

    authors: Carter P,Andersen CA,Rost B

    更新日期:2003-07-01 00:00:00

  • Genome-wide evidence for local DNA methylation spreading from small RNA-targeted sequences in Arabidopsis.

    abstract::Transposable elements (TEs) and their relics play major roles in genome evolution. However, mobilization of TEs is usually deleterious and strongly repressed. In plants and mammals, this repression is typically associated with DNA methylation, but the relationship between this epigenetic mark and TE sequences has not ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkr324

    authors: Ahmed I,Sarazin A,Bowler C,Colot V,Quesneville H

    更新日期:2011-09-01 00:00:00

  • Rapid and efficient construction of markerless deletions in the Escherichia coli genome.

    abstract::We have developed an improved and rapid genomic engineering procedure for the construction of custom-designed microorganisms. This method, which can be performed in 2 days, permits restructuring of the Escherichia coli genome via markerless deletion of selected genomic regions. The deletion process was mediated by a s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkn359

    authors: Yu BJ,Kang KH,Lee JH,Sung BH,Kim MS,Kim SC

    更新日期:2008-08-01 00:00:00

  • Structural mechanisms of the degenerate sequence recognition by Bse634I restriction endonuclease.

    abstract::Restriction endonuclease Bse634I recognizes and cleaves the degenerate DNA sequence 5'-R/CCGGY-3' (R stands for A or G; Y for T or C, '/' indicates a cleavage position). Here, we report the crystal structures of the Bse634I R226A mutant complexed with cognate oligoduplexes containing ACCGGT and GCCGGC sites, respectiv...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gks300

    authors: Manakova E,Grazulis S,Zaremba M,Tamulaitiene G,Golovenko D,Siksnys V

    更新日期:2012-08-01 00:00:00

  • A WW-like module in the RAG1 N-terminal domain contributes to previously unidentified protein-protein interactions.

    abstract::More than one-third of the RAG1 protein can be truncated from the N-terminus with only subtle effects on the products of V(D)J recombination in vitro or in a mouse. What, then, is the function of the N-terminal domain? We believe it to be regulatory. We determined, several years ago, that an included RING motif could ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkp192

    authors: Maitra R,Sadofsky MJ

    更新日期:2009-06-01 00:00:00

  • Determination of base pairing in Escherichia coli and Bacillus stearothermophilus 5S RNAs by infrared spectroscopy.

    abstract::The extent of base pairing in Escherichia coli and Bacillus stearothermophilus 5S RNAs was determined by infrared spectroscopy. From the infrared spectra taken at 20 degrees and 52 degrees C it is concluded that E. coli and B. stearothermophlius 5S RNAs possess a large number of base pairs (Table I). Comparison of our...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/7.4.1043

    authors: Appel B,Erdmann VA,Stulz J,Ackerman T

    更新日期:1979-10-25 00:00:00

  • ORegAnno: an open-access community-driven resource for regulatory annotation.

    abstract::ORegAnno is an open-source, open-access database and literature curation system for community-based annotation of experimentally identified DNA regulatory regions, transcription factor binding sites and regulatory variants. The current release comprises 30 145 records curated from 922 publications and describing regul...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkm967

    authors: Griffith OL,Montgomery SB,Bernier B,Chu B,Kasaian K,Aerts S,Mahony S,Sleumer MC,Bilenky M,Haeussler M,Griffith M,Gallo SM,Giardine B,Hooghe B,Van Loo P,Blanco E,Ticoll A,Lithwick S,Portales-Casamar E,Donaldson IJ,

    更新日期:2008-01-01 00:00:00

  • DNA analysis with multiplex microarray-enhanced PCR.

    abstract::We have developed a highly sensitive method for DNA analysis on 3D gel element microarrays, a technique we call multiplex microarray-enhanced PCR (MME-PCR). Two amplification strategies are carried out simultaneously in the reaction chamber: on or within gel elements, and in bulk solution over the gel element array. M...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gnh184

    authors: Pemov A,Modi H,Chandler DP,Bavykin S

    更新日期:2005-01-20 00:00:00

  • PPC: an algorithm for accurate estimation of SNP allele frequencies in small equimolar pools of DNA using data from high density microarrays.

    abstract::Robust estimation of allele frequencies in pools of DNA has the potential to reduce genotyping costs and/or increase the number of individuals contributing to a study where hundreds of thousands of genetic markers need to be genotyped in very large populations sample sets, such as genome wide association studies. In o...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gni142

    authors: Brohede J,Dunne R,McKay JD,Hannan GN

    更新日期:2005-09-30 00:00:00

  • ArrayExpress--a public repository for microarray gene expression data at the EBI.

    abstract::ArrayExpress is a public repository for microarray data that supports the MIAME (Minimum Information About a Microarray Experiment) requirements and stores well-annotated raw and normalized data. As of November 2004, ArrayExpress contains data from approximately 12,000 hybridizations covering 35 species. Data can be s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gki056

    authors: Parkinson H,Sarkans U,Shojatalab M,Abeygunawardena N,Contrino S,Coulson R,Farne A,Lara GG,Holloway E,Kapushesky M,Lilja P,Mukherjee G,Oezcimen A,Rayner T,Rocca-Serra P,Sharma A,Sansone S,Brazma A

    更新日期:2005-01-01 00:00:00

  • The ribonuclease DIS3 promotes let-7 miRNA maturation by degrading the pluripotency factor LIN28B mRNA.

    abstract::Multiple myeloma, the second most frequent hematologic tumor after lymphomas, is an incurable cancer. Recent sequencing efforts have identified the ribonuclease DIS3 as one of the most frequently mutated genes in this disease. DIS3 represents the catalytic subunit of the exosome, a macromolecular complex central to th...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkv387

    authors: Segalla S,Pivetti S,Todoerti K,Chudzik MA,Giuliani EC,Lazzaro F,Volta V,Lazarevic D,Musco G,Muzi-Falconi M,Neri A,Biffo S,Tonon G

    更新日期:2015-05-26 00:00:00

  • Secondary structure of MS2 phage RNA and bias in code word usage.

    abstract::Based on the secondary structural model of MS2 RNA, it is shown that, in base-pairing regions of the RNA, there is a bias in the use of synonymous codons which favours C and/or G over U and/or A in the third codon positions, and that in non-pairing regions, there is an opposite bias which favours U and/or A over C and...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/7.7.2073

    authors: Hasegawa M,Yasunaga T,Miyata T

    更新日期:1979-12-11 00:00:00

  • SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update.

    abstract::The SIGnaling Network Open Resource 2.0 (SIGNOR 2.0) is a public repository that stores signaling information as binary causal relationships between biological entities. The captured information is represented graphically as a signed directed graph. Each signaling relationship is associated to an effect (up/down-regul...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkz949

    authors: Licata L,Lo Surdo P,Iannuccelli M,Palma A,Micarelli E,Perfetto L,Peluso D,Calderone A,Castagnoli L,Cesareni G

    更新日期:2020-01-08 00:00:00

  • High efficiency transformation of E. coli by high voltage electroporation.

    abstract::E. coli can be transformed to extremely high efficiencies by subjecting a mixture of cells and DNA to brief but intense electrical fields of exponential decay waveform (electroporation). We have obtained 10(9) to 10(10) transformants/micrograms with strains LE392 and DH5 alpha, and plasmids pUC18 and pBR329. The proce...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/16.13.6127

    authors: Dower WJ,Miller JF,Ragsdale CW

    更新日期:1988-07-11 00:00:00

  • Identification of the factors that interact with NCBP, an 80 kDa nuclear cap binding protein.

    abstract::It has been shown that the monomethylated cap structure plays important roles in pre-mRNA splicing and nuclear export of RNA. As a candidate for the factor involved in these nuclear events we have previously purified an 80 kDa nuclear cap binding protein (NCBP) from a HeLa cell nuclear extract and isolated its full-le...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/23.18.3638

    authors: Kataoka N,Ohno M,Moda I,Shimura Y

    更新日期:1995-09-25 00:00:00

  • A circular trans-acting hepatitis delta virus ribozyme.

    abstract::A circular trans-acting ribozyme designed to adopt the motif of the hepatitis delta virus (HDV) trans-acting ribozyme was produced. The circular form was generated in vitro by splicing a modified group I intron precursor RNA in which the relative order of the 5' and 3' splice sites, flanking the single HDV-like ribozy...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/21.18.4253

    authors: Puttaraju M,Perrotta AT,Been MD

    更新日期:1993-09-11 00:00:00

  • Regulation of adenovirus alternative RNA splicing at the level of commitment complex formation.

    abstract::The adenovirus late region 1 (L1) represents an example of an alternatively spliced gene where one 5' splice site is spliced to two alternative 3' splice sites, to produce two mRNAs; the 52,55K and IIIa mRNAs, respectively. Accumulation of the L1 mRNAs is temporally regulated during the infectious cycle. Thus, the pro...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/22.3.332

    authors: Kreivi JP,Akusjärvi G

    更新日期:1994-02-11 00:00:00

  • Gene mapping and gene enrichment by the avidin-biotin interaction: use of cytochrome-c as a polyamine bridge.

    abstract::A modification of previously described methods of electron microscopic gene mapping and of gene enrichment based on the avidin-biotin interaction is presented. The modification consists of coupling cytochrome-c instead of pentane diamine to the oxidized 2', 3' terminus of an RNA by Schiff base formation and BH-4 reduc...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/5.2.385

    authors: Sodja A,Davidson N

    更新日期:1978-02-01 00:00:00

  • Cap ribose methylation of c-mos mRNA stimulates translation and oocyte maturation in Xenopus laevis.

    abstract::In Xenopus oocytes, progesterone stimulates the cytoplasmic polyadenylation and resulting translational activation of c-mos mRNA, which is necessary for the induction of oocyte maturation. Although details of the biochemistry of polyadenylation are beginning to emerge, the mechanism by which 3' poly(A) addition stimul...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/26.13.3208

    authors: Kuge H,Brownlee GG,Gershon PD,Richter JD

    更新日期:1998-07-01 00:00:00

  • Identification of family-determining residues in PHD fingers.

    abstract::Histone modifications are fundamental to chromatin structure and transcriptional regulation, and are recognized by a limited number of protein folds. Among these folds are PHD fingers, which are present in most chromatin modification complexes. To date, about 15 PHD finger domains have been structurally characterized,...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq947

    authors: Slama P,Geman D

    更新日期:2011-03-01 00:00:00

  • Models of triple-stranded polynucleotides with optimised stereochemistry.

    abstract::Detailed models are presented for the triple-stranded polynucleotide helices of poly (U)-poly (A)-poly (U) (two forms), poly (U)-poly d (A) -poly (U), poly d(C)-poly d(I)-poly d(C), poly d(T)-polyd(A)-poly d(T) and poly (I)-poly (A)-poly (I). The models were genrated using a computerized, linked-atom procedure which p...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/3.10.2459

    authors: Arnott S,Bond PJ,Selsing E,Smith PJ

    更新日期:1976-10-01 00:00:00

  • G-quadruplexes and G-quadruplex ligands: targets and tools in antiviral therapy.

    abstract::G-quadruplexes (G4s) are non-canonical nucleic acids secondary structures that form within guanine-rich strands of regulatory genomic regions. G4s have been extensively described in the human genome, especially in telomeres and oncogene promoters; in recent years the presence of G4s in viruses has attracted increasing...

    journal_title:Nucleic acids research

    pub_type: 杂志文章,评审

    doi:10.1093/nar/gky187

    authors: Ruggiero E,Richter SN

    更新日期:2018-04-20 00:00:00

  • On the mechanism of tRNA methylase-tRNA recognition.

    abstract::In order to further elucidate the mechanism of tRNA methylase-tRNA intreaction the methylation of some individual tRNAs separately and by pairs was performed. In conditions of tRNA excess the methylation rates of positionally analogous nucleotides in tRNA molecules are not summed up when two substrates are simultaneou...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/3.8.2079

    authors: Gambaryan AS,Venkstern TV,Bayev AA

    更新日期:1976-08-01 00:00:00

  • KRAS promoter oligonucleotide with decoy activity dimerizes into a unique topology consisting of two G-quadruplex units.

    abstract::Mutations of the KRAS proto-oncogene are associated with several tumor types, which is why it is being considered as a target for anti-cancer drug development. The human KRAS promoter contains a nuclease hypersensitive element (NHE), which can bind to nuclear proteins and is believed to form G-quadruplex structures. P...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkv1359

    authors: Podbevšek P,Plavec J

    更新日期:2016-01-29 00:00:00

  • A novel technique for the identification of CpG islands exhibiting altered methylation patterns (ICEAMP).

    abstract::Aberrant CpG methylation changes occurring during tumour progression include the loss (hypomethylation) and gain (hypermethylation) of methyl groups. Techniques currently available for examining such changes either require selection of a region, then examination of methylation changes, or utilise methylation-sensitive...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/29.24.e123

    authors: Brock GJ,Huang TH,Chen CM,Johnson KJ

    更新日期:2001-12-15 00:00:00

  • An in vitro RNA polymerase III system from S. cerevisiae: effects of deletions and point mutations upon SUP4 gene transcription.

    abstract::A soluble cell-free extract containing RNA polymerase III and factors essential for selective transcription of the yeast SUP4-o tRNATyr gene was prepared from Saccharomyces cerevisiae cells. An intragenic promoter for yeast RNA polymerase III was identified within the yeast tRNATyr coding sequence by testing several s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/10.24.8127

    authors: Koski RA,Allison DS,Worthington M,Hall BD

    更新日期:1982-12-20 00:00:00

  • Tissue-specific and imprinted epigenetic modifications of the human NDN gene.

    abstract::Allele-specific DNA methylation, histone acetylation and histone methylation are recognized as epigenetic characteristics of imprinted genes and imprinting centers (ICs). These epigenetic modifications are also used to regulate tissue-specific gene expression. Epigenetic differences between alleles can be significant ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkh671

    authors: Lau JC,Hanel ML,Wevrick R

    更新日期:2004-06-24 00:00:00

  • Biological availability and nuclease resistance extend the in vitro activity of a phosphorothioate-3'hydroxypropylamine oligonucleotide.

    abstract::Augmented biological activity in vitro has been demonstrated in oligonucleotides (oligos) modified to provide nuclease resistance, to enhance cellular uptake or to increase target affinity. How chemical modification affects the duration of effect of an oligo with potent activity has not been investigated directly. We ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/22.6.977

    authors: Tam RC,Li Y,Noonberg S,Hwang DG,Lui G,Hunt CA,Garovoy MR

    更新日期:1994-03-25 00:00:00