当前位置： SCI文献检索 > NUCLEIC ACIDS RESEARCH期刊下所有文献 > Rice Proteome Database based on two-dimensional polyacrylamide gel electrophoresis: its status in 2003.

Rice Proteome Database based on two-dimensional polyacrylamide gel electrophoresis: its status in 2003.

Abstract：

:The Rice Proteome Database is the first detailed database to describe the proteome of rice. The current release contains 21 reference maps based on two-dimensional polyacrylamide gel electrophoresis (2D-PAGE) of proteins from rice tissues and subcellular compartments. These reference maps comprise 11 941 identified proteins showing tissue and subcellular localization, corresponding to 4180 separate protein entries in the database. The Rice Proteome Database contains the calculated properties of each protein such as molecular weight, isoelectric point and expression; experimentally determined properties such as amino acid sequences obtained using protein sequencers and mass spectrometry; and the results of database searches such as sequence homologies. The database is searchable by keyword, accession number, protein name, isoelectric point, molecular weight and amino acid sequence, or by selection of a spot on one of the 2D-PAGE reference maps. Cross-references are provided to tools for proteomics and to other 2D-PAGE databases, which in turn provide many links to other molecular databases. The information in the Rice Proteome Database is updated weekly, and is available on the World Wide Web at http://gene64.dna.affrc.go.jp/RPD/.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Komatsu S,Kojima K,Suzuki K,Ozaki K,Higo K

doi

10.1093/nar/gkh020

keywords:

subject

Has Abstract

pub_date

2004-01-01 00:00:00

pages

D388-92

issue

Database issue

eissn

0305-1048

issn

1362-4962

pii

32/suppl_1/D388

journal_volume

32

pub_type

杂志文章

相关文献

NUCLEIC ACIDS RESEARCH文献大全
  • Overlapping signals for translational regulation and packaging of influenza A virus segment 2.

    abstract：:Influenza A virus segment 2 mRNA expresses three polypeptides: PB1, PB1-F2 and PB1-N40, from AUGs 1, 4 and 5 respectively. Two short open reading frames (sORFs) initiated by AUGs 2 and 3 are also present. To understand translational regulation in this system, we systematically mutated AUGs 1-4 and monitored polypeptid...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkr487

    authors： Wise HM,Barbezange C,Jagger BW,Dalton RM,Gog JR,Curran MD,Taubenberger JK,Anderson EC,Digard P

    更新日期：2011-09-01 00:00:00

  • The UCSC Genome Browser database: 2018 update.

    abstract：:The UCSC Genome Browser (https://genome.ucsc.edu) provides a web interface for exploring annotated genome assemblies. The assemblies and annotation tracks are updated on an ongoing basis-12 assemblies and more than 28 tracks were added in the past year. Two recent additions are a display of CRISPR/Cas9 guide sequences...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkx1020

    authors： Casper J,Zweig AS,Villarreal C,Tyner C,Speir ML,Rosenbloom KR,Raney BJ,Lee CM,Lee BT,Karolchik D,Hinrichs AS,Haeussler M,Guruvadoo L,Navarro Gonzalez J,Gibson D,Fiddes IT,Eisenhart C,Diekhans M,Clawson H,Barber GP,

    更新日期：2018-01-04 00:00:00

  • Adenovirus DNA replication in vitro: site-directed mutagenesis of the nuclear factor I binding site of the Ad2 origin.

    abstract：:The template requirements for efficient adenovirus DNA replication were studied in vitro in a reconstituted system with cloned DNA fragments, containing the Ad2 origin region, as templates. Replication is enhanced by nuclear factor I, a cellular protein that binds specifically to the Ad2 origin. This stimulation is sh...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/13.13.4935

    authors： de Vries E,van Driel W,Tromp M,van Boom J,van der Vliet PC

    更新日期：1985-07-11 00:00:00

  • Ribosomal DNA insertion elements R1Bm and R2Bm can transpose in a sequence specific manner to locations outside the 28S genes.

    abstract：:A fraction of the ribosomal 28S genes in some insects are interrupted at specific sites by insertion elements R1 and R2 (also called Type I and II). These elements contain long open-reading frames with homology to reverse transcriptase. We have identified in the silkmoth, Bombyx mori, copies of these elements which ha...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/16.22.10561

    authors： Xiong Y,Burke WD,Jakubczak JL,Eickbush TH

    更新日期：1988-11-25 00:00:00

  • Intron mobility in phage T4 is dependent upon a distinctive class of endonucleases and independent of DNA sequences encoding the intron core: mechanistic and evolutionary implications.

    abstract：:Although mobility of the phylogenetically widespread group I introns appears to be mechanistically similar, the phage T4 intron-encoded endonucleases that promote mobility of the td and sunY introns are different from their eukaryotic counterparts. Most notably, they cleave at a distance from the intron insertion site...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/18.13.3763

    authors： Bell-Pedersen D,Quirk S,Clyman J,Belfort M

    更新日期：1990-07-11 00:00:00

  • Decreased expression of topoisomerase IIbeta in poly(ADP-ribose) polymerase-deficient cells.

    abstract：:Recent studies with poly(ADP-ribose) polymerase (PARP)-deficient mice have highlighted the role of this enzyme in genomic stability and response to various genomic insults. In the absence of DNA damaging treatment, we report here that a PARP-deficient cell line (PARP-/-) established from knockout mice displays a decre...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/26.22.5134

    authors： Canitrot Y,de Murcia G,Salles B

    更新日期：1998-11-15 00:00:00

  • Modulation of glutathione peroxidase expression by selenium: effect on human MCF-7 breast cancer cell transfectants expressing a cellular glutathione peroxidase cDNA and doxorubicin-resistant MCF-7 cells.

    abstract：:We have studied the effect of selenium on the expression of a cellular glutathione peroxidase, GSHPx-1, in transfected MCF-7 cells and in doxorubicin-resistant (Adrr) MCF-7 cells. A GSHPx-1 cDNA with a Rous Sarcoma virus promoter was transfected into a human mammary carcinoma cell line, MCF-7, which has very low endog...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/18.6.1531

    authors： Chu FF,Esworthy RS,Akman S,Doroshow JH

    更新日期：1990-03-25 00:00:00

  • Complete nucleotide sequence of the 23S rRNA gene of the Cyanobacterium, Anacystis nidulans.

    abstract：:The nucleotide sequence of the Anacystis nidulans 23S rRNA gene, including the 5'- and 3'-flanking regions has been determined. The gene is 2876 nucleotides long and shows higher primary sequence homology to the 23S rRNAs of plastids (84.5%) than to that of E. coli (79%). The predicted rRNA transcript also shares many...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/12.7.3373

    authors： Douglas SE,Doolittle WF

    更新日期：1984-04-11 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

  • LocDB: experimental annotations of localization for Homo sapiens and Arabidopsis thaliana.

    abstract：:LocDB is a manually curated database with experimental annotations for the subcellular localizations of proteins in Homo sapiens (HS, human) and Arabidopsis thaliana (AT, thale cress). Currently, it contains entries for 19,604 UniProt proteins (HS: 13,342; AT: 6262). Each database entry contains the experimentally der...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkq927

    authors： Rastogi S,Rost B

    更新日期：2011-01-01 00:00:00

  • Selection and some properties of recombinant clones of lambda bacteriophage containing genes of Drosophila melanogaster.

    abstract：:The lambdagt clones containing fragments of the Drosophila melanogaster genome were prepared and characterized by hybridization of their DNA with (I) lambdagt-cRNA; (2) lambdaC-cRNA; (3) Dm-cRNA; (4) the mRNA of D.melanogaster culture cells and (5) the stable cytoplasmic poly (A) RNA from the same source. The techniqu...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/3.8.2115

    authors： Ilyin YV,Tchurikov NA,Georgiev

    更新日期：1976-08-01 00:00:00

  • Responsive self-assembly of tectoRNAs with loop-receptor interactions from the tetrahydrofolate (THF) riboswitch.

    abstract：:Naturally occurring RNAs are known to exhibit a high degree of modularity, whereby specific structural modules (or motifs) can be mixed and matched to create new molecular architectures. The modular nature of RNA also affords researchers the ability to characterize individual structural elements in controlled syntheti...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkz304

    authors： Mitchell C,Polanco JA,DeWald L,Kress D,Jaeger L,Grabow WW

    更新日期：2019-07-09 00:00:00

  • The synthesis of blocked triplet-phosphoramidites and their use in mutagenesis.

    abstract：:A general approach for the synthesis of oligonucleotide-triplet phosphoramidites and the synthesis of four such blocks are described. A strategy was devised to minimize the number of dimer precursors needed for synthesis of a complete set of triplet-amidite blocks encoding all 20 amino acids. Whereas synthesis of 20 t...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/23.22.4677

    authors： Ono A,Matsuda A,Zhao J,Santi DV

    更新日期：1995-11-25 00:00:00

  • Molecular cloning of MSSP-2, a c-myc gene single-strand binding protein: characterization of binding specificity and DNA replication activity.

    abstract：:We have previously reported the human cDNA encoding MSSP-1, a sequence-specific double- and single-stranded DNA binding protein [Negishi, Nishita, Saëgusa, Kakizaki, Galli, Kihara, Tamai, Miyajima, Iguchi-Ariga and Ariga (1994) Oncogene, 9, 1133-1143]. MSSP-1 binds to a DNA replication origin/transcriptional enhancer ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/22.25.5576

    authors： Takai T,Nishita Y,Iguchi-Ariga SM,Ariga H

    更新日期：1994-12-25 00:00:00

  • Inhibition of translation by IFIT family members is determined by their ability to interact selectively with the 5'-terminal regions of cap0-, cap1- and 5'ppp- mRNAs.

    abstract：:Ribosomal recruitment of cellular mRNAs depends on binding of eIF4F to the mRNA's 5'-terminal 'cap'. The minimal 'cap0' consists of N7-methylguanosine linked to the first nucleotide via a 5'-5' triphosphate (ppp) bridge. Cap0 is further modified by 2'-O-methylation of the next two riboses, yielding 'cap1' (m7GpppNmN) ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkt1321

    authors： Kumar P,Sweeney TR,Skabkin MA,Skabkina OV,Hellen CU,Pestova TV

    更新日期：2014-03-01 00:00:00

  • Post-transcriptional modification in archaeal tRNAs: identities and phylogenetic relations of nucleotides from mesophilic and hyperthermophilic Methanococcales.

    abstract：:Post-transcriptional modifications in archaeal RNA are known to be phylogenetically distinct but relatively little is known of tRNA from the Methanococci, a lineage of methanogenic marine euryarchaea that grow over an unusually broad temperature range. Transfer RNAs from Methanococcus vannielii, Methanococcus maripalu...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/29.22.4699

    authors： McCloskey JA,Graham DE,Zhou S,Crain PF,Ibba M,Konisky J,Söll D,Olsen GJ

    更新日期：2001-11-15 00:00:00

  • Opposing roles of mitochondrial and nuclear PARP1 in the regulation of mitochondrial and nuclear DNA integrity: implications for the regulation of mitochondrial function.

    abstract：:The positive role of PARP1 in regulation of various nuclear DNA transactions is well established. Although a mitochondrial localization of PARP1 has been suggested, its role in the maintenance of the mitochondrial DNA is currently unknown. Here we investigated the role of PARP1 in the repair of the mitochondrial DNA i...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gku1089

    authors： Szczesny B,Brunyanszki A,Olah G,Mitra S,Szabo C

    更新日期：2014-12-01 00:00:00

  • Isolation and characterization of the activated B-cell factor 1 homolog in Caenorhabditis elegans.

    abstract：:Members of the basic helix-loop-helix (bHLH) family of transcription factors regulate a wide array of developmental processes in many cell types, including cell fate specification, differentiation and morphogenesis. Our studies describe the cloning of a gene from the nematode Caenorhabditis elegans that is closely rel...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/29.21.4423

    authors： Nguyen L,Round J,O'Connell R,Geurts P,Funes-Duran M,Wong J,Jongeward G,Vierra CA

    更新日期：2001-11-01 00:00:00

  • Supercoiling energy and nucleosome formation: the role of the arginine-rich histone kernel.

    abstract：:We have formed complexes of relaxed closed circular Col E1 DNA with various combinations of histones, and examined the effects of treating the complexes with nicking-closing enzyme. Germond et al (1) have shown that when a mixture of the four core histones of the nucleosome (HIA, H2B, H3 and H4) is used in such an exp...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/4.5.1159-a

    authors： Camerini-Otero RD,Felsenfeld G

    更新日期：1977-01-01 00:00:00

  • Circular chromosomal DNA in the sulfur-dependent archaebacterium Sulfolobus acidocaldarius.

    abstract：:The shape of the chromosomal DNA of the sulfur-dependent archaebacterium Sulfolobus acidocaldarius was analyzed by the pulsed-field gel electrophoresis(PFGE). S.acidocaldarius DNA digested with Notl showed two DNA bands at around 1.0 Mbp and 2.1 Mbp. Notl-linking clones were isolated from the library of S.acidocaldari...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/18.5.1133

    authors： Yamagishi A,Oshima T

    更新日期：1990-03-11 00:00:00

  • Thermal stability of poly(A) and poly(U) complexes in H2O and D2O: isotopic effects on critical temperatures and transition widths.

    abstract：:This is a study of the effect of total and partial deuteration of solvent on critical temperatures and profiles of all four reactions occurring in poly(A) x n poly(U) (n = 1 or 2) aqueous systems. The study was done at observational times not longer than hydrogen exchange times at base pairs in helically ordered struc...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/8.18.4283

    authors： Cupane A,Vitrano E,San Biago PL,Madonia F,Palma MU

    更新日期：1980-09-25 00:00:00

  • OligoArrayDb: pangenomic oligonucleotide microarray probe sets database.

    abstract：:OligoArrayDb is a comprehensive database containing pangenomic oligonucleotide microarray probe sets designed for most of the sequenced genomes that are not covered by commercial catalog arrays. The availability of probe sequences, associated with custom microarray fabrication services offered by many companies and co...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkn761

    authors： Rouillard JM,Gulari E

    更新日期：2009-01-01 00:00:00

  • Directed evolution of recombinase specificity by split gene reassembly.

    abstract：:The engineering of new enzymes that efficiently and specifically modify DNA sequences is necessary for the development of enhanced gene therapies and genetic studies. To address this need, we developed a robust strategy for evolving site-specific recombinases with novel substrate specificities. In this system, recombi...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkq125

    authors： Gersbach CA,Gaj T,Gordley RM,Barbas CF 3rd

    更新日期：2010-07-01 00:00:00

  • DINAMelt web server for nucleic acid melting prediction.

    abstract：:The DINAMelt web server simulates the melting of one or two single-stranded nucleic acids in solution. The goal is to predict not just a melting temperature for a hybridized pair of nucleic acids, but entire equilibrium melting profiles as a function of temperature. The two molecules are not required to be complementa...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gki591

    authors： Markham NR,Zuker M

    更新日期：2005-07-01 00:00:00

  • Comparative analysis of the locus control region of the rabbit beta-like gene cluster: HS3 increases transient expression of an embryonic epsilon-globin gene.

    abstract：:The rabbit homolog to the locus control region (LCR) of the human beta-like globin gene cluster was isolated, and long segments containing the DNase I hypersensitive sites (HS) were sequenced. The order and spacing of HS4, HS3, HS2 and HS1 are conserved between rabbit and human. Alignment of these sequences with their...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/21.5.1265

    authors： Hardison R,Xu J,Jackson J,Mansberger J,Selifonova O,Grotch B,Biesecker J,Petrykowska H,Miller W

    更新日期：1993-03-11 00:00:00

  • PolyA_DB 2: mRNA polyadenylation sites in vertebrate genes.

    abstract：:Polyadenylation of nascent transcripts is one of the key mRNA processing events in eukaryotic cells. A large number of human and mouse genes have alternative polyadenylation sites, or poly(A) sites, leading to mRNA variants with different protein products and/or 3'-untranslated regions (3'-UTRs). PolyA_DB 2 contains p...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkl870

    authors： Lee JY,Yeh I,Park JY,Tian B

    更新日期：2007-01-01 00:00:00

  • Global landscape of mouse and human cytokine transcriptional regulation.

    abstract：:Cytokines are cell-to-cell signaling proteins that play a central role in immune development, pathogen responses, and diseases. Cytokines are highly regulated at the transcriptional level by combinations of transcription factors (TFs) that recruit cofactors and the transcriptional machinery. Here, we mined through thr...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gky787

    authors： Carrasco Pro S,Dafonte Imedio A,Santoso CS,Gan KA,Sewell JA,Martinez M,Sereda R,Mehta S,Fuxman Bass JI

    更新日期：2018-10-12 00:00:00

  • An evaluation of tyramide signal amplification and archived fixed and frozen tissue in microarray gene expression analysis.

    abstract：:Archival formalin-fixed, paraffin-embedded and ethanol-fixed tissues represent a potentially invaluable resource for gene expression analysis, as they are the most widely available material for studies of human disease. Little data are available evaluating whether RNA obtained from fixed (archival) tissues could produ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/30.2.e4

    authors： Karsten SL,Van Deerlin VM,Sabatti C,Gill LH,Geschwind DH

    更新日期：2002-01-15 00:00:00

  • 5-methylcytosine in RNA: detection, enzymatic formation and biological functions.

    abstract：:The nucleobase modification 5-methylcytosine (m(5)C) is widespread both in DNA and different cellular RNAs. The functions and enzymatic mechanisms of DNA m(5)C-methylation were extensively studied during the last decades. However, the location, the mechanism of formation and the cellular function(s) of the same modifi...

    journal_title：Nucleic acids research

    pub_type： 杂志文章,评审

    doi：10.1093/nar/gkp1117

    authors： Motorin Y,Lyko F,Helm M

    更新日期：2010-03-01 00:00:00

  • Genome-wide mapping of histone H4 serine-1 phosphorylation during sporulation in Saccharomyces cerevisiae.

    abstract：:We previously showed that histone H4 serine-1 phosphorylation (H4S1ph) is evolutionarily conserved during gametogenesis, and contributes to post-meiotic nuclear compaction and to full completion of sporulation in the yeast Saccharomyces cerevisiae. Previous studies showed that H4S1ph and another modification of the sa...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkq218

    authors： Govin J,Schug J,Krishnamoorthy T,Dorsey J,Khochbin S,Berger SL

    更新日期：2010-08-01 00:00:00