Abstract:
:We present a rapid and efficient method for the detection of related transcripts with different expression levels. This approach combines the rapid amplification of cDNA ends (RACE) method with a cDNA subtractive technique. The strategy is based on successive subtractions of prevalent isoforms resulting in enrichment of less expressed transcripts. For each subtraction, a biotinylated primer specific for the prevalent isoform is hybridized on the total cDNA and the hybrid is retained on a streptavidin affinity column. The unbound cDNA serves as a template for subsequent isoform identification. To illustrate its application we describe the isolation of three new actin cDNA isoforms in the freshwater planarian Dugesia (S) polychroa.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Fagotti A,Gabbiani G,Pascolini R,Neuville Pdoi
10.1093/nar/26.8.2031subject
Has Abstractpub_date
1998-04-15 00:00:00pages
2031-3issue
8eissn
0305-1048issn
1362-4962pii
gkb341journal_volume
26pub_type
杂志文章abstract::Single cell RNA-seq experiments provide valuable insight into cellular heterogeneity but suffer from low coverage, 3' bias and technical noise. These unique properties of single cell RNA-seq data make study of alternative splicing difficult, and thus most single cell studies have restricted analysis of transcriptome v...
journal_title:Nucleic acids research
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abstract::The chemical reactivity of matched T and C bases to osmium tetroxide and hydroxylamine near mismatched and unmatched bases in a heteroduplex between two strands of DNA with multiple differences was examined. Data was available for matched bases one or two positions away from 24 mismatches. Reactive bases were found ne...
journal_title:Nucleic acids research
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abstract::A simplified and economical method for the attachment of 2'-deoxyribo, ribo and arabinonucleosides onto long-chain alkylamidopropanoic acid controlled-pore glass (LCAAP-CPG, P-3) is described. In this procedure, 5'-O-tritylated nucleosides are coupled directly to LCAAP-CPG in excellent yields using 1-(3-dimethylaminop...
journal_title:Nucleic acids research
pub_type: 杂志文章
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abstract::Spliced leader (SL) trans-splicing is a critical element of gene expression in a number of eukaryotic groups. This process is arguably best understood in nematodes, where biochemical and molecular studies in Caenorhabditis elegans and Ascaris suum have identified key steps and factors involved. Despite this, the preci...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx500
更新日期:2017-08-21 00:00:00
abstract::Gene trapping is a method of generating murine embryonic stem (ES) cell lines containing insertional mutations in known and novel genes. A number of international groups have used this approach to create sizeable public cell line repositories available to the scientific community for the generation of mutant mouse str...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkj097
更新日期:2006-01-01 00:00:00
abstract::Smarcal1 is a SWI/SNF-family protein with an ATPase domain involved in DNA-annealing activities and a binding site for the RPA single-strand-DNA-binding protein. Although the role played by Smarcal1 in the maintenance of replication forks has been established, it remains unknown whether Smarcal1 contributes to genomic...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2015-07-27 00:00:00
abstract::KRAS is one of the most mutated genes in human cancer. It is controlled by a G4 motif located upstream of the transcription start site. In this paper, we demonstrate that 8-oxoguanine (8-oxoG), being more abundant in G4 than in non-G4 regions, is a new player in the regulation of this oncogene. We designed oligonucleo...
journal_title:Nucleic acids research
pub_type: 杂志文章
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abstract::Type I toxin-antitoxin (TA) systems have been identified in a wide range of bacterial genomes. Here, we report the characterization of a new type I TA system present on the chromosome of the major human gastric pathogen, Helicobacter pylori. We show that the aapA1 gene encodes a 30 amino acid peptide whose artificial ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1343
更新日期:2017-05-05 00:00:00
abstract::Mutations in immunoglobulin µ-binding protein 2 (Ighmbp2) cause distal spinal muscular atrophy type 1 (DSMA1), an autosomal recessive disease that is clinically characterized by distal limb weakness and respiratory distress. However, despite extensive studies, the mechanism of disease-causing mutations remains elusive...
journal_title:Nucleic acids research
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更新日期:2012-11-01 00:00:00
abstract::We have previously isolated two different aFGF cDNA clones from kidney and brain. The two corresponding mRNA, designated aFGF 1.A and 1.B, are the predominant species in kidney and brain, respectively. During the characterization of aFGF mRNA in glioblastoma cells, we demonstrated that aFGF mRNA in U1242MG and D65MG g...
journal_title:Nucleic acids research
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更新日期:1993-02-11 00:00:00
abstract::We report a novel system for efficient and specific targeted delivery of large nucleic acids to and into cells. Plasmid DNA and core histones were assembled to chromatin by salt gradient dialysis and subsequently connected to bispecific antibody derivatives (bsAbs) via a nucleic acid binding peptide bridge. The result...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2019-06-04 00:00:00
abstract::Ribonucleotides are misincorporated into replicating DNA due to the similarity of deoxyribonucleotides and ribonucleotides, the high concentration of ribonucleotides in the nucleus and the imperfect accuracy of replicative DNA polymerases in choosing the base with the correct sugar. Embedded ribonucleotides change cer...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gku773
更新日期:2014-01-01 00:00:00
abstract::DNA fragments containing mispaired and modified bases, bulges, lesions and specific sequences have altered conformation. Methods for separating complex samples of DNA fragments based on conformation but independent of length have many applications, including (i) separation of mismatched or unmatched DNA fragments from...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gnh018
更新日期:2004-02-03 00:00:00
abstract::Lysinomicin, a naturally-occurring pseudodisaccharide, inhibits translation in prokaryotes. We report that lysinomicin (and three related compounds) are able to inhibit the self-splicing of group I introns, thus identifying pseudodisaccharides as a novel class of group I intron splicing inhibitors. Lysinomicin inhibit...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.23.4983
更新日期:1994-11-25 00:00:00
abstract::Chromatin modulation at various cis-acting elements is critical for V(D)J recombination during T and B cell development. MARbeta, a matrix-associated region (MAR) located upstream of the T cell receptor beta (TCRbeta) enhancer (Ebeta), serves a crucial role in silencing Ebeta-mediated TCR activation. By DNaseI hyperse...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh807
更新日期:2004-09-15 00:00:00
abstract::A typical G-rich telomeric DNA strand, which runs 5'-->3' toward the chromosome ends, protrudes by several nucleotides in lower eukaryotes. In human chromosomes long G-rich 3'-overhangs have been found. Apart from the standard G-rich tail, several non-canonical terminal structures have been proposed. However, the mech...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.7.e35
更新日期:2001-04-01 00:00:00
abstract::Novel techniques for high-throughput steady-state metabolomic profiling yield information about changes of nearly thousands of metabolites. Such metabolomic profiles, when analyzed together with transcriptional profiles, can reveal novel insights about underlying biological processes. While a number of conceptual appr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw266
更新日期:2016-07-08 00:00:00
abstract::The CABS-fold web server provides tools for protein structure prediction from sequence only (de novo modeling) and also using alternative templates (consensus modeling). The web server is based on the CABS modeling procedures ranked in previous Critical Assessment of techniques for protein Structure Prediction competi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt462
更新日期:2013-07-01 00:00:00
abstract::A novel method combining elements of suppression subtractive hybridization with high throughput differential screening permits the efficient and rapid cloning of rarely transcribed differentially expressed genes. The experimental strategy virtually excludes the possibility of isolating false positive clones. The poten...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.13.2598
更新日期:1997-07-01 00:00:00
abstract::iSARST is a web server for efficient protein structural similarity searches. It is a multi-processor, batch-processing and integrated implementation of several structural comparison tools and two database searching methods: SARST for common structural homologs and CPSARST for homologs with circular permutations. iSARS...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp291
更新日期:2009-07-01 00:00:00
abstract::RNA G-quadruplexes (G4s) are secondary structures proposed to function as regulators of post-transcriptional mRNA localisation and translation. G4s within some neuronal mRNAs are known to control distal localisation and local translation, contributing to distinct local proteomes that facilitate the synaptic remodellin...
journal_title:Nucleic acids research
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更新日期:2020-09-25 00:00:00
abstract::Previous studies have established a critical role of both TFIIB and RNA polymerase II (RNAPII) in start site selection in the yeast Saccharomyces cerevisiae. However, it remains unclear how the TFIIB-RNAPII interaction impacts on this process since such an interaction can potentially influence both preinitiation compl...
journal_title:Nucleic acids research
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更新日期:2002-07-15 00:00:00
abstract::GenBank (R) is a comprehensive database that contains publicly available nucleotide sequences for more than 260 000 named organisms, obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects. Most submissions are made using the web-based BankIt or st...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm929
更新日期:2008-01-01 00:00:00
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
更新日期:1998-11-15 00:00:00
abstract::DNA primase has been partially purified from wheat germ. This enzyme, like DNA primases characterized from many procaryotic and eucaryotic sources, catalyses the synthesis of primers involved in DNA replication. However, the wheat enzyme differs from animal DNA primase in that it is found partially associated with a D...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.16.4867
更新日期:1990-08-25 00:00:00
abstract::The expression pattern and regulatory functions of microRNAs (miRNAs) are intensively investigated in various tissues, cell types and disorders. Differential miRNA expression signatures have been revealed in healthy and unhealthy tissues using high-throughput profiling methods. For further analyses of miRNA signatures...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr214
更新日期:2011-07-01 00:00:00
abstract::Riboswitches are important gene regulatory elements frequently encountered in bacterial mRNAs. The recently discovered nadA riboswitch contains two similar, tandemly arrayed aptamer domains, with the first domain possessing high affinity for nicotinamide adenine dinucleotide (NAD+). The second domain which comprises t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa1029
更新日期:2020-12-02 00:00:00
abstract::The sequence requirements for transcriptional stimulation of the adenovirus major late promoter (MLP) by the products of the early transcription unit Ela and by the replication of viral DNA were analyzed by in vitro transcription. Sequences upstream of +33 are involved in the moderate Ela-responsiveness of the MLP, wh...
journal_title:Nucleic acids research
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更新日期:1988-05-11 00:00:00
abstract::We have isolated and sequenced a cDNA clone coding for human Retinol Binding Protein. The sequence indicates that Retinol Binding Protein is synthesized as a single polypeptide chain precursor which is then matured to the secreted protein by removal of a leader peptide. Southern and Northern blot analysis suggest that...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.22.7769
更新日期:1983-11-25 00:00:00
abstract::NF-IL6beta regulates gene expression and plays function roles in many tissues. The EGF-regulated cyclooxygenase-2 (cox-2) expression is mediated through p38(MAPK) signaling pathway and positively correlates with NF-IL6beta expression in A431 cells. NF-IL6beta coordinated with c-Jun on cox-2 transcriptional activation ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkj422
更新日期:2006-01-05 00:00:00