Abstract:
:The hypothesis that DNA strands complementary to the coding strand contain in phase coding sequences has been investigated. Statistical analysis of the 50 genes of bacteriophage T7 shows no significant correlation between patterns of codon usage on the coding and non-coding strands. In Bacillus and yeast genes the correlation observed is not different from that expected with random synonymous codon usage, while a high correlation seen in 52 E. coli genes can be explained in terms of an excess of RNY codons. A deficiency of UUA, CUA and UCA codons (complementary to termination) seems to be restricted to the E. coli genes, and may be due to low abundance of the relevant cognate tRNA species. Thus the analysis shows that the non-coding strand has the properties expected of a sequence complementary to a coding strand, with no indications that it encodes, or may have encoded, proteins.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Sharp PMdoi
10.1093/nar/13.4.1389subject
Has Abstractpub_date
1985-02-25 00:00:00pages
1389-97issue
4eissn
0305-1048issn
1362-4962journal_volume
13pub_type
杂志文章abstract::Cells of the central nervous system (CNS) are prone to the devastating consequences of trinucleotide repeat (TNR) expansion. Some CNS cells, including astrocytes, show substantial TNR instability in affected individuals. Since astrocyte enrichment occurs in brain regions sensitive to neurodegeneration and somatic TNR ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl614
更新日期:2006-01-01 00:00:00
abstract::The complete mitochondrial (mt) genome of Crossostoma lacustre, a freshwater loach from mountain stream of Taiwan, has been cloned and sequenced. This fish mt genome, consisting of 16558 base-pairs, encodes genes for 13 proteins, two rRNAs, and 22 tRNAs, in addition to a regulatory sequence for replication and transcr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.18.4853
更新日期:1992-09-25 00:00:00
abstract::The growing application of gene expression profiling demands powerful yet user-friendly bioinformatics tools to support systems-level data understanding. NetworkAnalyst was first released in 2014 to address the key need for interpreting gene expression data within the context of protein-protein interaction (PPI) netwo...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz240
更新日期:2019-07-02 00:00:00
abstract::Restriction-free cloning (RF-cloning) is a PCR-based technology that expands on the QuikChange™ mutagenesis process originally popularized by Stratagene in the mid-1990s, and allows the insertion of essentially any sequence into any plasmid at any location. While RF-cloning is a powerful tool for the design of custom ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks396
更新日期:2012-07-01 00:00:00
abstract::Many, if not all, mRNAs in T.brucei start with the same sequence of 35 nucleotides, separately encoded in clustered so-called mini-exon repeats. From these mini-exon repeats a 141-nt precursor RNA with the 35-nt sequence at its 5' end is transcribed. Indirect evidence suggests that this RNA is linked in a second step ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.24.9457
更新日期:1984-12-21 00:00:00
abstract::Most RNA molecules collapse rapidly and reach the native state through a pathway that contains numerous traps and unproductive intermediates. The D135 group II intron ribozyme is unusual in that it can fold slowly and directly to the native state, despite its large size and structural complexity. Here we use hydroxyl ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gki973
更新日期:2005-11-27 00:00:00
abstract::Synthesis and antisense activity of oligonucleotides modified with 2'-O-[2-[(N,N-dimethylamino)oxy] ethyl] (2'-O-DMAOE) are described. The 2'-O-DMAOE-modified oligonucleotides showed superior metabolic stability in mice. The phosphorothioate oligonucleotide 'gapmers', with 2'-O-DMAOE- modified nucleoside residues at t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh220
更新日期:2004-02-03 00:00:00
abstract::The nematode Caenorhabditis elegans contains a small family of vitellogenin genes which is expressed abundantly, but only in the intestine of the adult hermaphrodite worm. In order to identify possible regulatory elements, we have sequenced the DNA surrounding the 5' ends of five of the six genes. Contained within reg...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.14.5283
更新日期:1985-07-25 00:00:00
abstract::A direct and label-free electrochemical biosensor for the detection of the protein-mismatched DNA interaction was designed using immobilized N-terminal histidine tagged Escherichia coli. MutS on a Ni-NTA coated Au electrode. General electrochemical methods, cyclic voltammetry (CV), electrochemical quartz crystal micro...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl364
更新日期:2006-06-13 00:00:00
abstract::Recently, we reported a multicopy mammalian plasmid with a structure related to polyoma. The plasmid, named L factor, was found at a high copy number (5,000 or more per cell) in a subclone derived from mouse L cells. We attempted to utilize L factor as a plasmid vector for mammalian cells. A series of composite DNA co...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.21.8815
更新日期:1987-11-11 00:00:00
abstract::To investigate the feasibility of conducting a genomic-scale protein labeling and localization study in Escherichia coli, a representative subset of 23 coding DNA sequences (CDSs) was selected for chromosomal tagging with one or more fluorescent protein genes (EGFP, EYFP, mRFP1, DsRed2). We used lambda-Red recombinati...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl1158
更新日期:2007-01-01 00:00:00
abstract::Mitochondrial transcription factor A (TFAM) stimulates transcription from mitochondrial DNA (mtDNA) promoters in vitro and in organello. To investigate whether changes of TFAM levels also modulate transcription and replication in situ, the protein was transiently overexpressed in cultured cells. Mitochondrial mRNAs we...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh921
更新日期:2004-11-16 00:00:00
abstract::The nucleotide sequence of the Klebsiella pneumoniae ntrA gene has been determined. NtrA encodes a 53,926 Dalton acidic polypeptide; a calculated molecular weight which is significantly lower than that determined by SDS polyacrylamide gel analysis. NtrA is followed by another open-reading frame (orf) of at least 75 am...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.21.7607
更新日期:1985-11-11 00:00:00
abstract::Loss-of-function (LOF) methods such as RNA interference (RNAi), antisense oligonucleotides or CRISPR-based genome editing provide unparalleled power for studying the biological function of genes of interest. However, a major concern is non-specific targeting, which involves depletion of transcripts other than those in...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky437
更新日期:2018-07-06 00:00:00
abstract::The multifunctional RNA-dependent RNA polymerase L protein of vesicular stomatitis virus catalyzes unconventional pre-mRNA capping via the covalent enzyme-pRNA intermediate formation, which requires the histidine-arginine (HR) motif in the polyribonucleotidyltransferase domain. Here, the effects of cap-defective mutat...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku901
更新日期:2014-10-29 00:00:00
abstract::In this article, we introduce the Gypsy Database (GyDB) of mobile genetic elements, an in-progress database devoted to the non-redundant analysis and evolutionary-based classification of mobile genetic elements. In this first version, we contemplate eukaryotic Ty3/Gypsy and Retroviridae long terminal repeats (LTR) ret...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm697
更新日期:2008-01-01 00:00:00
abstract::The essential elements of the sea urchin L. variegatus U1 snRNA promoter were mapped by microinjection of a U1 maxigene into sea urchin zygotes. Two elements are required for expression: a distal sequence element (DSE) located between -318 and -300 and a proximal sequence element (PSE) centered at -55. Removal or alte...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.14.3743
更新日期:1992-07-25 00:00:00
abstract::Translation is a key regulatory step, linking transcriptome and proteome. Two major methods of translatome investigations are RNC-seq (sequencing of translating mRNA) and Ribo-seq (ribosome profiling). To facilitate the investigation of translation, we built a comprehensive database TranslatomeDB (http://www.translato...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx1034
更新日期:2018-01-04 00:00:00
abstract::Nucleosomes, a basic structural unit of eukaryotic chromatin, play a significant role in regulating gene expression. We have developed a web tool based on DNA sequences known from empirical and theoretical studies to influence DNA bending and flexibility, and to exclude nucleosomes. NXSensor (available at http://www.s...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl158
更新日期:2006-07-01 00:00:00
abstract::R.E.D. Server is a unique, open web service, designed to derive non-polarizable RESP and ESP charges and to build force field libraries for new molecules/molecular fragments. It provides to computational biologists the means to derive rigorously molecular electrostatic potential-based charges embedded in force field l...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr288
更新日期:2011-07-01 00:00:00
abstract::A cDNA that encodes a transcription factor able to recognize the thyroglobulin gene promoter in vitro was isolated from a dog thyroid cDNA expression library in lambda gt11. The library was screened with a multimerized 20 bp-oligonucleotide probe corresponding to the -126 to -107 bp region of the bovine thyroglobulin ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.5.1121
更新日期:1991-03-11 00:00:00
abstract::BsoFI , ItaI and Fsp4HI are isoshizomers of Fnu4HI (5'-GC NGC-3'). Both Fnu4HI and BsoFI have previously been shown to be inhibited by cytosine-specific methylation within the recognition sequence. Fnu4HI is inhibited if either the internal cytosine at position 2 or the external cytosine at position 5 of the restricti...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.16.3196
更新日期:1997-08-15 00:00:00
abstract::Over millions of years the structure and complexity of the transcriptional regulatory network (TRN) in bacteria has changed, reorganized and enabled them to adapt to almost every environmental niche on earth. In order to understand the plasticity of TRNs in bacteria, we studied the conservation of currently known TRNs...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl423
更新日期:2006-07-13 00:00:00
abstract::Molecular Biology Database List (MBDL) includes brief descriptions and pointers to Web sites for the various databases described in this issue as well as other Web sites presenting data sets relevant to molecular biology. This information is compiled into a list (http://www.oup.co.uk/nar/Volume_27/Issue_01/summary/ gk...
journal_title:Nucleic acids research
pub_type:
doi:10.1093/nar/27.1.1
更新日期:1999-01-01 00:00:00
abstract::The repAC operon of plasmid RSF1010 consists of the genes for proteins E, F, RepA (DNA helicase), and RepC (origin-binding initiator protein) and is transcriptionally initiated by a promoter called P4. We have studied the expression of the repAC operon in vivo by using fusions to the lacZ reporter gene. The results sh...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.21.6215
更新日期:1990-11-11 00:00:00
abstract::A total of 10 B-lymphocyte-specific DNase I hypersensitive sites located in the chicken Ig-beta locus were divided into four regions and combinations of deletions of these regions were carried out. A decrease in transcription of the Ig-beta gene to <3% was demonstrated in cells with deletions in all four regions. The ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl469
更新日期:2006-08-11 00:00:00
abstract::Mitochondrial DNA from human tissue culture cells contains heterogeneous sequences located within a previously identified, evolutionarily conserved region termed CSB-2. CSB-2 is located near the origin of heavy-strand mitochondrial DNA synthesis and the major transcriptional promoters for each strand of human mitochon...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.22.8093
更新日期:1985-11-25 00:00:00
abstract::Despite the extensive use of Saccharomyces cerevisiae as a platform for synthetic biology, strain engineering remains slow and laborious. Here, we employ CRISPR/Cas9 technology to build a cloning-free toolkit that addresses commonly encountered obstacles in metabolic engineering, including chromosomal integration locu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1023
更新日期:2017-01-09 00:00:00
abstract::RNase J is a conserved ribonuclease that belongs to the β-CASP family of nucleases. It possesses both endo- and exo-ribonuclease activities, which play a key role in pre-rRNA maturation and mRNA decay. Here we report high-resolution crystal structures of Deinococcus radiodurans RNase J complexed with RNA or uridine 5'...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv444
更新日期:2015-06-23 00:00:00
abstract::Developmental stage-specific expression of the β-type globin genes is regulated by many cis- and trans-acting components. The adult β-globin gene contains an E-box located 60 bp downstream of the transcription start site that has been shown to bind transcription factor upstream stimulatory factor (USF) and to contribu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku107
更新日期:2014-04-01 00:00:00