Abstract:
:Since its conception in 1992, differential display PCR (DD-PCR) has attracted widespread interest. Theoretically an attractive cloning approach, it combines the comparative analysis of several samples with the sensitivity of PCR. Although a large number of studies embracing this technology have been initiated, few novel genes of interest have been identified, suggesting that the method has not realised its potential. The present report shows that by modifying primer design, sampling of differentially expressed genes can be greatly enhanced and relevant genes can be isolated. Using our modified conditions DD-PCR efficiently screens a wide range of gene expression levels, in which differences are represented on a linear scale.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Graf D,Fisher AG,Merkenschlager Mdoi
10.1093/nar/25.11.2239subject
Has Abstractpub_date
1997-06-01 00:00:00pages
2239-40issue
11eissn
0305-1048issn
1362-4962pii
gka362journal_volume
25pub_type
杂志文章abstract::Previously we identified Rrp1 and Rrp2 as two proteins required for the Sfr1/Swi5-dependent branch of homologous recombination (HR) in Schizosaccharomyces pombe. Here we use a yeast two-hybrid approach to demonstrate that Rrp1 and Rrp2 can interact with each other and with Swi5, an HR mediator protein. Rrp1 and Rrp2 f...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt564
更新日期:2013-09-01 00:00:00
abstract::The RNA-Seq technology has revolutionized transcriptome characterization not only by accurately quantifying gene expression, but also by the identification of novel transcripts like chimeric fusion transcripts. The 'fusion' or 'chimeric' transcripts have improved the diagnosis and prognosis of several tumors, and have...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx315
更新日期:2017-07-27 00:00:00
abstract::The initiation region of the MS2 replicase cistron can be isolated as a fragment 59 bases in length protected from RNAase by the binding of the coat protein which serves as a translational repressor. This fragment MS2 R(-53 leads to 6) starts 53 bases before the initiation codon and retains full activity in binding ri...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.5.1761
更新日期:1979-01-01 00:00:00
abstract::We have isolated a rat cDNA, named FE65, hybridizing to an mRNA of about 2,300 nucleotides present in rat brain, undetectable in rat liver and very poorly represented in other tissues. An mRNA of the same size is present in human neuroblastoma cells and is absent from other human cell lines. The FE65 cDNA contains an ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.19.5269
更新日期:1991-10-11 00:00:00
abstract::Previously, we have shown that all class-1 polypeptide release factors (RFs) share a common glycine-glycine-glutamine (GGQ) motif, which is critical for RF activity. Here, we subjected to site-directed mutagenesis two invariant amino acids, Gln185 and Arg189, situated in the GGQ minidomain of human eRF1, followed by d...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.19.3982
更新日期:2001-10-01 00:00:00
abstract::The 0.048502 megabase (Mb), primarily double-stranded DNA of bacteriophage lambda has single-stranded, complementary termini (cohesive ends) that undergo either spontaneous intramolecular joining to form open circular DNA or spontaneous intermolecular joining to form linear, end-to-end oligomeric DNAs (concatemers); c...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.11.3047
更新日期:1991-06-11 00:00:00
abstract::Bleomycin B(2)(BLM) in the presence of iron [Fe(II)] and O(2)catalyzes single-stranded (ss) and double-stranded (ds) cleavage of DNA. Electrospray ionization ion trap mass spectrometry was used to monitor these cleavage processes. Two duplex oligonucleotides containing an ethylene oxide tether between both strands wer...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.9.1978
更新日期:2000-05-01 00:00:00
abstract::We have previously characterized an extracellular nuclease from Pseudomonas BAL 31 which, in addition to other activities, displays a double-strand exonuclease activity which progressively shortens both strands of linear duplex DNA molecules from both termini. This degradation is accomplished without the introduction ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/5.5.1445
更新日期:1978-05-01 00:00:00
abstract::We describe the first polyA-containing processed pseudogene reported in the chicken. It includes a 0.52 kb open reading frame which could encode a 175 amino acid protein. The putative protein shows extensive homology to the ras oncogene superfamily, being most closely related to the yeast protein YP2. It is one of the...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.5.2123
更新日期:1986-03-11 00:00:00
abstract::Vitamin C breaks DNA only in the presence of oxygen. Superoxide dismutase has no effect on the reaction but catalase suppresses it. Superoxide also gives rise to breaks in DNA suppressible by both superoxide dismutase and catalase. The hydroxyl radical seems to be the agent responsible for strand cleavage itself. ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/3.5.1139
更新日期:1976-05-01 00:00:00
abstract::Genome-wide association studies (GWAS) have become a preferred method to identify new genetic susceptibility loci. This technique aims to understanding the molecular etiology of common diseases, but in many cases, it has led to the identification of loci with no obvious biological relevance. Herein, we show that previ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks169
更新日期:2012-06-01 00:00:00
abstract::N-(guanosin-8-yl) acetylaminofluorene (Guo-AAF) was prepared by the reaction of N-acetoxy-N-2-acetylaminofluorene (AAAF) and guanosine. Antibodies to Guo-AAF were elicited in rabbits by immunization with bovine serum albumin-Guo-AAF conjugate. The antibodies were purified by affinity chromatography on a Sepharose-Guo-...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.2.733
更新日期:1979-02-01 00:00:00
abstract::We report the latest release (version 1.4) of the CATH protein domains database (http://www.biochem.ucl.ac.uk/bsm/cath). This is a hierarchical classification of 13 359 protein domain structures into evolutionary families and structural groupings. We currently identify 827 homologous families in which the proteins hav...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.1.275
更新日期:1999-01-01 00:00:00
abstract::DNA primases recognize single-stranded DNA (ssDNA) sequences to synthesize RNA primers during lagging-strand replication. Arabidopsis thaliana encodes an ortholog of the DNA primase-helicase from bacteriophage T7, dubbed AtTwinkle, that localizes in chloroplasts and mitochondria. Herein, we report that AtTwinkle synth...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx745
更新日期:2017-10-13 00:00:00
abstract::The rapidly growing amount of genomic sequence data being generated and made publicly available necessitate the development of new data storage and archiving methods. The vast amount of data being shared and manipulated also create new challenges for network resources. Thus, developing advanced data compression techni...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks709
更新日期:2012-11-01 00:00:00
abstract::The regulation of the Sso II restriction-modification system from Shigella sonnei was studied in vivo and in vitro . In lacZ fusion experiments, Sso II methyltransferase (M. Sso II) was found to repress its own synthesis but stimulate expression of the cognate restriction endonuclease (ENase). The N-terminal 72 amino ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.11.2114
更新日期:1997-06-01 00:00:00
abstract::We have isolated a second gene (MLS1), which in addition to DAL7, encodes malate synthase from S. cerevisiae. Expression of the two genes is specific for their physiological roles in carbon and nitrogen metabolism. Expression of MLS1, which participates in the utilization of non-fermentable carbon sources, is sensitiv...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.21.5677
更新日期:1992-11-11 00:00:00
abstract::The DNA sequence of a 225.4 kilobase segment of the Escherichia coli K-12 genome is described here, from 76.0 to 81.5 minutes on the genetic map. This brings the total of contiguous sequence from the E.coli genome project to 725.1 kb (76.0 to 92.8 minutes). We found 191 putative coding genes (ORFs) of which 72 genes w...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.13.2576
更新日期:1994-07-11 00:00:00
abstract::Post-translational modifications contribute to the spliceosome dynamics by facilitating the physical rearrangements of the spliceosome. Here, we report USP15, a deubiquitinating enzyme, as a regulator of protein-protein interactions for the spliceosome dynamics. We show that PRP31, a component of U4 snRNP, is modified...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1365
更新日期:2017-05-05 00:00:00
abstract::We describe snap-to-it probes, a novel probe technology to enhance the hybridization specificity of natural and unnatural nucleic acid oligomers using a simple and readily introduced structural motif. Snap-to-it probes were prepared from peptide nucleic acid (PNA) oligomers by modifying each terminus with a coordinati...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn219
更新日期:2008-06-01 00:00:00
abstract::Abasic sites are common DNA lesions resulting from spontaneous depurination and excision of damaged nucleobases by DNA repair enzymes. However, the influence of the local sequence context on the structure of the abasic site and ultimately, its recognition and repair, remains elusive. In the present study, duplex DNAs ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm622
更新日期:2008-01-01 00:00:00
abstract::We describe the synthesis of 2'-O-methyl, 2'-O-ethyl oligoribonucleotides and phosphorothioate oligodeoxyribonucleotides and demonstrate their utility as inhibitors of the in vitro U7 snRNP-dependent mRNA processing event. These 2'-O-modified compounds were designed to possess the binding affinity of an RNA molecule t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.10.2629
更新日期:1991-05-25 00:00:00
abstract::Bacteriophage T4 Dda helicase has recently been shown to be active as a monomer for unwinding of short duplex oligonucleotides and for displacing streptavidin from 3'-biotinylated oligonucleotides. However, its activity for streptavidin displacement and DNA unwinding has been shown to increase as the number of Dda mol...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl369
更新日期:2006-05-31 00:00:00
abstract::The Schizosaccharomyces pombe genome is one of the smallest among the free-living eukaryotes. We further reduced the S. pombe gene number by large-scale gene deletion to identify a minimal gene set required for growth under laboratory conditions. The genome-reduced strain has four deletion regions: 168.4 kb in the lef...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt233
更新日期:2013-05-01 00:00:00
abstract::Non-homologous DNA end joining (NHEJ) is considered the major pathway of double-strand break (DSB) repair in mammalian cells and depends, among other things, on the DNA end-binding Ku70/80 hetero-dimer. To investigate the function of Ku in NHEJ we have compared the ability of cell-free extracts from wild-type CHO-K1 c...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.13.2585
更新日期:2000-07-01 00:00:00
abstract::Approximately half of all human transcripts contain at least one upstream translational initiation site that precedes the main coding sequence (CDS) and gives rise to an upstream open reading frame (uORF). We generated uORFdb, publicly available at http://cbdm.mdc-berlin.de/tools/uorfdb, to serve as a comprehensive li...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt952
更新日期:2014-01-01 00:00:00
abstract::Protein-DNA recognition is a critical component of gene regulatory processes but the underlying molecular mechanisms are not yet completely understood. Whereas the DNA binding preferences of transcription factors (TFs) are commonly described using nucleotide sequences, the 3D DNA structure is recognized by proteins an...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt862
更新日期:2014-01-01 00:00:00
abstract::Accurate maps and DNA sequences for human subtelomere regions, along with detailed knowledge of subtelomere variation and long-range telomere-terminal haplotypes in individuals, are critical for understanding telomere function and its roles in human biology. Here, we use a highly automated whole genome mapping technol...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx017
更新日期:2017-05-19 00:00:00
abstract::Foldback DNA, prepared from mouse and Scilla sibirica main band DNA, and from rye (Secale cereale) total DNA, was characterised by denaturation, renaturation, and electron microscopy. 3H-cRNA of this DNA was hybridised in situ to nuclei and chromosomes of the respective species. There is no universal labelling pattern...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/5.10.3589
更新日期:1978-10-01 00:00:00
abstract::Sequential chromatin immunoprecipitation (SeqChIP) is a procedure in which formaldehyde-crosslinked, protein-DNA complexes from living cells are subjected to two sequential immunoprecipitations with antibodies of different specificity. SeqChIP has been used to address, in a qualitative manner, whether two proteins can...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gnh148
更新日期:2004-11-01 00:00:00