Transcription initiation sites within an IS2 insertion in a Gal-constitutive mutant of Escherichia coli.

abstract：:A physical map is presented for the 1200 kb genome of Mycoplasma mycoides subsp. mycoides Y, locating 32 cleavage sites for 8 restriction endonucleases. The large restriction fragments involved were separated and sized by pulsed-field agarose gel electrophoresis. Their locations on the map were determined by probing S...

journal_title：Nucleic acids research

authors： Pyle LE,Finch LR

更新日期：1988-07-11 00:00:00

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

authors： Motorin Y,Lyko F,Helm M

更新日期：2010-03-01 00:00:00

abstract：:Control of RNA processing plays a major role in HIV-1 gene expression. To explore the role of several hnRNP proteins in this process, we carried out a siRNA screen to examine the effect of depletion of hnRNPs A1, A2, D, H, I and K on HIV-1 gene expression. While loss of hnRNPs H, I or K had little effect, depletion of...

journal_title：Nucleic acids research

authors： Lund N,Milev MP,Wong R,Sanmuganantham T,Woolaway K,Chabot B,Abou Elela S,Mouland AJ,Cochrane A

更新日期：2012-04-01 00:00:00

abstract：:Exon arrays are regularly used to analyze differential splicing events. GeneChip Gene 1.0 ST Arrays (gene arrays) manufactured by Affymetrix, Inc. are primarily used to determine expression levels of transcripts, although their basic design is rather similar to GeneChip Exon 1.0 ST Arrays (exon arrays). Here, we show ...

journal_title：Nucleic acids research

authors： Gellert P,Teranishi M,Jenniches K,De Gaspari P,John D,Kreymborg Kg,Braun T,Uchida S

更新日期：2012-03-01 00:00:00

abstract：:In eukaryotes, DNA is packaged into a basic unit, the nucleosome which consists of 147 bp of DNA wrapped around a histone octamer composed of two copies each of the histones H2A, H2B, H3 and H4. Nucleosome structures are diverse not only by histone variants, histone modifications, histone composition but also through ...

journal_title：Nucleic acids research

authors： Ngo TT,Ha T

更新日期：2015-04-30 00:00:00

abstract：:The Comparative Toxicogenomics Database (CTD; http://ctdbase.org/) is a premier public resource for literature-based, manually curated associations between chemicals, gene products, phenotypes, diseases, and environmental exposures. In this biennial update, we present our new chemical-phenotype module that codes chemi...

journal_title：Nucleic acids research

authors： Davis AP,Grondin CJ,Johnson RJ,Sciaky D,McMorran R,Wiegers J,Wiegers TC,Mattingly CJ

更新日期：2019-01-08 00:00:00

abstract：:With the aid of a novel poly-dA tailing-partial restriction technique and S1-protection mapping, the 5' terminal coding sequence for the 40S precursor ribosomal RNA of Xenopus laevis has been exactly identified. Since the promoter sequence for the 40S RNA should lie close to its 5' terminal coding sequence, we are abl...

journal_title：Nucleic acids research

authors： Moss T,Birnstiel ML

更新日期：1979-08-24 00:00:00

abstract：:The channel proteins belonging to the major intrinsic proteins (MIP) superfamily are diverse and are found in all forms of life. Water-transporting aquaporin and glycerol-specific aquaglyceroporin are the prototype members of the MIP superfamily. MIPs have also been shown to transport other neutral molecules and gases...

journal_title：Nucleic acids research

authors： Gupta AB,Verma RK,Agarwal V,Vajpai M,Bansal V,Sankararamakrishnan R

更新日期：2012-01-01 00:00:00

abstract：:Bacterial tyrosine-kinases share no resemblance with their eukaryotic counterparts and they have been unified in a new protein family named BY-kinases. These enzymes have been shown to control several biological functions in the bacterial cells. In recent years biochemical studies, sequence analyses and structure reso...

journal_title：Nucleic acids research

authors： Jadeau F,Grangeasse C,Shi L,Mijakovic I,Deléage G,Combet C

更新日期：2012-01-01 00:00:00

abstract：:A physical mapping strategy has been developed to verify and accelerate the assembly and gap closure phase of a microbial genome shotgun-sequencing project. The protocol was worked out during the ongoing Pseudomonas putida KT2440 genome project. A macro-restriction map was constructed by linking probe hybridisation of...

journal_title：Nucleic acids research

authors： Weinel C,Tümmler B,Hilbert H,Nelson KE,Kiewitz C

更新日期：2001-11-15 00:00:00

abstract：:The alternation/deficiency in activation-3 (ADA3) is an essential component of the human p300/CBP-associated factor (PCAF) and yeast Spt-Ada-Gcn5-acetyltransferase (SAGA) histone acetyltransferase complexes. These complexes facilitate transactivation of target genes by association with transcription factors and modifi...

journal_title：Nucleic acids research

authors： Li CW,Ai N,Dinh GK,Welsh WJ,Chen JD

更新日期：2010-09-01 00:00:00

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

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

abstract：:Lnc2Meth (http://www.bio-bigdata.com/Lnc2Meth/), an interactive resource to identify regulatory relationships between human long non-coding RNAs (lncRNAs) and DNA methylation, is not only a manually curated collection and annotation of experimentally supported lncRNAs-DNA methylation associations but also a platform t...

journal_title：Nucleic acids research

authors： Zhi H,Li X,Wang P,Gao Y,Gao B,Zhou D,Zhang Y,Guo M,Yue M,Shen W,Ning S,Jin L,Li X

更新日期：2018-01-04 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

authors： Lozada-Chávez I,Janga SC,Collado-Vides J

更新日期：2006-07-13 00:00:00

abstract：:DNA synthesis is a fundamental requirement for cell proliferation and DNA repair, but no single method can identify the location, direction and speed of replication forks with high resolution. Mammalian cells have the ability to incorporate thymidine analogs along with the natural A, T, G and C bases during DNA synthe...

journal_title：Nucleic acids research

authors： Georgieva D,Liu Q,Wang K,Egli D

更新日期：2020-09-04 00:00:00

abstract：:Many cellular proteins are methylated on lysine residues and this has been most intensively studied for histone proteins. Lysine methylations on non-histone proteins are also frequent, but in most cases the functional significance of the methylation event, as well as the identity of the responsible lysine (K) specific...

journal_title：Nucleic acids research

authors： Jakobsson ME,Malecki J,Nilges BS,Moen A,Leidel SA,Falnes PØ

更新日期：2017-08-21 00:00:00

abstract：:Pathbase is a database that stores images of the abnormal histology associated with spontaneous and induced mutations of both embryonic and adult mice including those produced by transgenesis, targeted mutagenesis and chemical mutagenesis. Images of normal mouse histology and strain-dependent background lesions are al...

journal_title：Nucleic acids research

authors： Schofield PN,Bard JB,Booth C,Boniver J,Covelli V,Delvenne P,Ellender M,Engstrom W,Goessner W,Gruenberger M,Hoefler H,Hopewell J,Mancuso M,Mothersill C,Potten CS,Quintanilla-Fend L,Rozell B,Sariola H,Sundberg JP,Ward

更新日期：2004-01-01 00:00:00

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

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

abstract：:We have determined the stability of intramolecular DNA quadruplexes in which the four G(3)-tracts are connected by non-nucleosidic linkers containing propanediol, octanediol or hexaethylene glycol, replacing the TTA loops in the human telomeric repeat sequence. We find that these sequences all fold to form intramolecu...

journal_title：Nucleic acids research

authors： Risitano A,Fox KR

更新日期：2004-05-11 00:00:00

abstract：:A new method of representing DNA sequences has been devised which is termed stave projection. Compared with other formats for showing the base sequences of DNA, this method greatly enhances the ease of visual analysis of the sequences of bases and it is also in a machine readable form. Using this method it is possible...

journal_title：Nucleic acids research

authors： Cowin JE,Jellis CH,Rickwood D

更新日期：1986-01-10 00:00:00

abstract：:DIAL (dihedral alignment) is a web server that provides public access to a new dynamic programming algorithm for pairwise 3D structural alignment of RNA. DIAL achieves quadratic time by performing an alignment that accounts for (i) pseudo-dihedral and/or dihedral angle similarity, (ii) nucleotide sequence similarity a...

journal_title：Nucleic acids research

authors： Ferrè F,Ponty Y,Lorenz WA,Clote P

更新日期：2007-07-01 00:00:00

abstract：:Kyoto Encyclopedia of Genes and Genomes (KEGG, http://www.genome.jp/kegg/ or http://www.kegg.jp/) is a database resource that integrates genomic, chemical and systemic functional information. In particular, gene catalogs from completely sequenced genomes are linked to higher-level systemic functions of the cell, the o...

journal_title：Nucleic acids research

authors： Kanehisa M,Goto S,Sato Y,Furumichi M,Tanabe M

更新日期：2012-01-01 00:00:00

abstract：:The TcSNP database (http://snps.tcruzi.org) integrates information on genetic variation (polymorphisms and mutations) for different stocks, strains and isolates of Trypanosoma cruzi, the causative agent of Chagas disease. The database incorporates sequences (genes from the T. cruzi reference genome, mRNAs, ESTs and ge...

journal_title：Nucleic acids research

authors： Ackermann AA,Carmona SJ,Agüero F

更新日期：2009-01-01 00:00:00

abstract：:Phylogenetic analysis of Y-family DNA polymerases suggests that it can be subdivided into several discrete branches consisting of UmuC/DinB/Rev1/Rad30/Rad30A and Rad30B. The most diverse is the DinB family that is found in all three kingdoms of life. Searches of the complete genome of the crenarchaeon Sulfolobus solfa...

journal_title：Nucleic acids research

authors： Boudsocq F,Iwai S,Hanaoka F,Woodgate R

更新日期：2001-11-15 00:00:00

abstract：:DAXX displays complex biological functions. Remarkably, DAXX overexpression is a common feature in diverse cancers, which correlates with tumorigenesis, disease progression and treatment resistance. Structurally, DAXX is modular with an N-terminal helical bundle, a docking site for many DAXX interactors (e.g. p53 and ...

journal_title：Nucleic acids research

authors： Mahmud I,Liao D

更新日期：2019-09-05 00:00:00

abstract：:Underlying higher order chromatin organization are Structural Maintenance of Chromosomes (SMC) complexes, large protein rings that entrap DNA. The molecular mechanism by which SMC complexes organize chromatin is as yet incompletely understood. Two prominent models posit that SMC complexes actively extrude DNA loops (l...

journal_title：Nucleic acids research

authors： Gerguri T,Fu X,Kakui Y,Khatri BS,Barrington C,Bates PA,Uhlmann F

更新日期：2021-01-12 00:00:00

abstract：:We created a single cell sorting system to screen for enzyme activity in Escherichia coli producing 3,4 dihydroxy benzoate (34DHB). To do so, we engineered a transcription factor regulon controlling the expression of green fluorescent protein (GFP) for induction by 34DHB. An autoregulated transcription factor, pcaU, w...

journal_title：Nucleic acids research

authors： Jha RK,Kern TL,Fox DT,M Strauss CE

更新日期：2014-07-01 00:00:00

abstract：:Loop length and its composition are important for the structural and functional versatility of quadruplexes. To date studies on the loops have mainly concerned model sequences compared with naturally occurring quadruplex sequences which have diverse loop lengths and compositions. Herein, we have characterized 36 quadr...

journal_title：Nucleic acids research

authors： Kumar N,Maiti S

更新日期：2008-10-01 00:00:00

abstract：:Signal transducer and activator of transcription 6 (STAT6) is a regulator of transcription for interleukin-4 (IL-4)-induced genes. The ability of STAT6 to activate transcription depends on functional interaction with other transcription factors and coactivators. We have characterized the mechanism of STAT6-mediated tr...

journal_title：Nucleic acids research

authors： Välineva T,Yang J,Silvennoinen O

更新日期：2006-01-01 00:00:00

abstract：:Phosphorylation of the cellular single-stranded DNA-binding protein, replication protein A (RPA), occurs during normal mitotic cell cycle progression and also in response to genotoxic stress. In budding yeast, these reactions require the ATM homolog Mec1, a central regulator of the DNA replication and DNA damage check...

journal_title：Nucleic acids research

authors： Brush GS,Clifford DM,Marinco SM,Bartrand AJ

更新日期：2001-12-01 00:00:00