Abstract:
:The Network of Cancer Genes (NCG) collects and integrates data on 736 human genes that are mutated in various types of cancer. For each gene, NCG provides information on duplicability, orthology, evolutionary appearance and topological properties of the encoded protein in a comprehensive version of the human protein-protein interaction network. NCG also stores information on all primary interactors of cancer proteins, thus providing a complete overview of 5357 proteins that constitute direct and indirect determinants of human cancer. With the constant delivery of results from the mutational screenings of cancer genomes, NCG represents a versatile resource for retrieving detailed information on particular cancer genes, as well as for identifying common properties of precompiled lists of cancer genes. NCG is freely available at: http://bio.ifom-ieo-campus.it/ncg.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Syed AS,D'Antonio M,Ciccarelli FDdoi
10.1093/nar/gkp957subject
Has Abstractpub_date
2010-01-01 00:00:00pages
D670-5issue
Database issueeissn
0305-1048issn
1362-4962pii
gkp957journal_volume
38pub_type
杂志文章abstract::Melting of DNA in a segment bounded at both ends by regions of greater stability during electrophoresis in denaturing gradient gels show complex properties, not accommodated with standard melting theory. Compact bands of some DNA molecules become anomalously broadened at the retardation level in a denaturing gradient,...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.14.2775
更新日期:1995-07-25 00:00:00
abstract::The widely accepted model for the processing of tRNAs in Escherichia coli involves essential initial cleavages by RNase E within polycistronic transcripts to generate pre-tRNAs that subsequently become substrates for RNase P. However, recently we identified two polycistronic tRNA transcripts whose endonucleolytic proc...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm991
更新日期:2008-02-01 00:00:00
abstract::Structural changes of reconstituted SV 40 minichromosomes have been studied in relation to the salt concentration and addition of histone H1 by sedimentation and electron microscopy. Sedimentation data are represented as functions of the NaCl concentration and the Debye-Hückel electrostatic screening radius 1/alpha. T...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.11.3581
更新日期:1979-08-10 00:00:00
abstract::Conventional approaches to predict transcriptional regulatory interactions usually rely on the definition of a shared motif sequence on the target genes of a transcription factor (TF). These efforts have been frustrated by the limited availability and accuracy of TF binding site motifs, usually represented as position...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1286
更新日期:2013-02-01 00:00:00
abstract::EcoGene (http://ecogene.org) is a database and website devoted to continuously improving the structural and functional annotation of Escherichia coli K-12, one of the most well understood model organisms, represented by the MG1655(Seq) genome sequence and annotations. Major improvements to EcoGene in the past decade i...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1235
更新日期:2013-01-01 00:00:00
abstract::Two triple helix structures (15-mers containing only T.A-T triplets or containing mixed T.A-T and C.G-C triplets) have been studied by uranyl mediated DNA photocleavage to probe the accessibility of the phosphates of the DNA backbone. Whereas the phosphates of the pyrimidine strand are at least as accessible as in dou...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.11.2735
更新日期:1992-06-11 00:00:00
abstract::Therapeutic small interfering RNAs (siRNAs) are composed of chemically modified nucleotides, which enhance RNA stability and increase affinity in Watson-Crick base pairing. However, the precise fate of such modified nucleotides once the siRNA is degraded within the cell is unknown. Previously, we demonstrated that deo...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt120
更新日期:2013-04-01 00:00:00
abstract::While it has been long recognized that genes are not randomly positioned along the genome, the degree to which its 3D structure influences the arrangement of genes has remained elusive. In particular, several lines of evidence suggest that actively transcribed genes are spatially co-localized, forming transcription fa...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1360
更新日期:2013-02-01 00:00:00
abstract::Type II restriction endonuclease BsaWI recognizes a degenerated sequence 5'-W/CCGGW-3' (W stands for A or T, '/' denotes the cleavage site). It belongs to a large family of restriction enzymes that contain a conserved CCGG tetranucleotide in their target sites. These enzymes are arranged as dimers or tetramers, and re...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv768
更新日期:2015-09-18 00:00:00
abstract::The human MTH1 gene for 8-oxo-7,8-dihydrodeoxyguanosine triphosphatase, produces seven types (types 1, 2A, 2B, 3A, 3B, 4A and 4B) of mRNAs. The B-type mRNAs with exon 2b-2c segments have three additional in-frame AUGs in their 5' regions. We report here that these transcripts produce three forms of MTH1 polypeptides (...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.22.4335
更新日期:1999-11-15 00:00:00
abstract::A theoretical approach for linkage mapping the genome of any higher eukaryote is described. It uses the polymerase chain reaction, oligonucleotides of random sequence and single haploid cells. Markers are defined and then the DNA of a single sperm is broken at random (eg by gamma-rays) and physically split into 3 aliq...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.17.6795
更新日期:1989-09-12 00:00:00
abstract::The helical twist of poly d(A-s4T) was determined from the periodicity of the cleavage patterns of the double stranded polydeoxynucleotide adsorbed on calcium phosphate and found to be 14 bp per turn. Both cleavage patterns and 31P NMR spectra indicate a mononucleotide structure rather than an alternating B DNA like p...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.5.2241
更新日期:1986-03-11 00:00:00
abstract::A number of regulatory nascent peptides have been shown to regulate gene expression by causing programmed ribosome stalling during translation. Nascent peptide emerges from the ribosome through the exit tunnel, and one-third of the way along which β-loop structures of ribosomal proteins uL4 and uL22 protrude into the ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz1190
更新日期:2020-02-28 00:00:00
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 pr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh020
更新日期:2004-01-01 00:00:00
abstract::Clones carrying sequences expressed at altered abundance levels in dunce mutants were isolated by differentially screening a genomic library with cDNA probes representing the RNA population from dunce+ flies and the RNA population from dunce mutant flies. These mutants have an elevated cAMP content, so some isolates p...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.20.8313
更新日期:1989-10-25 00:00:00
abstract::The metazoan cell cycle-regulated histone mRNAs are the only known cellular mRNAs that do not terminate in a poly(A) tall. Instead, mammalian histone mRNAs terminate in a highly conserved stem-loop structure which is required for 3'-end processing and regulates mRNA stability. The poly(A) tail not only regulates trans...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.10.1954
更新日期:1996-05-15 00:00:00
abstract::The transcriptional activity of a human transposon-like family of repeats, called the THE-1 family, has been studied in cell culture and in human tissue. Both strands of THE-1 are present in several discrete length poly A plus RNAs. Primer extension studies and the structures of cDNA clones show that these THE-1 trans...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.13.5199
更新日期:1987-07-10 00:00:00
abstract::Bulky lesions in the template strand block the progression of RNA polymerase II (RNAP II) and are repaired more rapidly than lesions in the non-transcribed strand, which do not block transcription. In order to better understand the basis of this transcription-coupled repair we developed an in vitro system with purifie...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.4.787
更新日期:1997-02-15 00:00:00
abstract::The polyadenylate binding protein 1 (PABPN1) is a ubiquitously expressed RNA binding protein vital for multiple steps in RNA metabolism. Although PABPN1 plays a critical role in the regulation of RNA processing, mutation of the gene encoding this ubiquitously expressed RNA binding protein causes a specific form of mus...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx786
更新日期:2017-10-13 00:00:00
abstract::Dramatic improvements in ribozyme mimics have been achieved by employing the principles of small molecule catalysis to the design of macromolecular, biomimetic reagents. Ribozyme mimics derived from the ligand 2,9-dimethylphenanthroline (neocuproine) show at least 30-fold improvements in efficiency at sequence-specifi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.10.2199
更新日期:2001-05-15 00:00:00
abstract::A truly universal nucleobase enables a host of novel applications such as simplified templates for PCR primers, randomized sequencing and DNA based devices. A universal base must pair indiscriminately to each of the canonical bases with little or preferably no destabilization of the overall duplex. In reality, many ca...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw736
更新日期:2016-10-14 00:00:00
abstract::Chloroplast DNA, isolated from a synchronized culture of Chlamydomonas reinhardii, was digested with restriction endonucleases and examined in the electron microscope. Restriction fragments containing displacement loops (D-loop) were photographed and measured to determine the position of replicated sequences in relati...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.9.3843
更新日期:1984-05-11 00:00:00
abstract::A multipurpose plasmid, pUR 250, has been constructed. It contains seven unique cloning sites (Hind III, Xba I, Sal I, Acc I, Hinc II, BamH I and EcoR I) in a small region of its lac Z gene part. Insertion of foreign DNA into the plasmid can be easily detected. Plasmid DNA isolated from a clone by a rapid method can b...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.19.5765
更新日期:1982-10-11 00:00:00
abstract::The integrase (IN) protein of human immunodeficiency virus type 1 (HIV-1) catalyzes site-specific cleavage of 2 bases from the viral long terminal repeat (LTR) sequence yet it binds DNA with little DNA sequence specificity. We have previously demonstrated that the C-terminal half of IN (amino acids 154-288) possesses ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.15.3507
更新日期:1993-07-25 00:00:00
abstract::Key components of the translational apparatus, i.e. ribosomes, elongation factor EF-Tu and most aminoacyl-tRNA synthetases, are stereoselective and prevent incorporation of d-amino acids (d-aa) into polypeptides. The rare appearance of d-aa in natural polypeptides arises from post-translational modifications or non-ri...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv566
更新日期:2015-07-13 00:00:00
abstract::The Génolevures online database (http://cbi.labri.fr/Genolevures/ and http://genolevures.org/) provides exploratory tools and curated data sets relative to nine complete and seven partial genome sequences determined and manually annotated by the Génolevures Consortium, to facilitate comparative genomic studies of Hemi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn859
更新日期:2009-01-01 00:00:00
abstract::Extensive research has characterized distinct exogenous RNAi pathways interfering in gene expression during vegetative growth of the unicellular model ciliate Paramecium. However, role of RNAi in endogenous transcriptome regulation, and environmental adaptation is unknown. Here, we describe the first genome-wide profi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz553
更新日期:2019-09-05 00:00:00
abstract::Transcription of RNA from the beta-globin (major) gene in nuclei from induced mouse erythroleukemia cells terminates within the region between 700 to 2000 bases downstream from the poly(A) addition site, but not at particularly favored sites. In addition we present the first analysis of in vivo labeled RNA from a cell...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.22.8723
更新日期:1984-11-26 00:00:00
abstract::Recent effective use of TAL Effectors (TALEs) has provided an important approach to the design and synthesis of sequence-specific DNA-binding proteins. However, it is still a challenging task to design and manufacture effective TALE modulators because of the limited knowledge of TALE-DNA interactions. Here we synthesi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku535
更新日期:2014-08-01 00:00:00
abstract::High-throughput experimental technologies gradually shift the paradigm of biological research from hypothesis-validation toward hypothesis-generation science. Translating diverse types of large-scale experimental data into testable hypotheses, however, remains a daunting task. We previously demonstrated that heterogen...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku367
更新日期:2014-07-01 00:00:00