Circular dichroism spectra of twelve short DNA restriction fragments of known sequence: a comparison of measured and calculated spectra.

abstract：:The transcriptional potential of the hsp70 heat shock gene promoter is established prior to induction by stress. It has been shown previously that the TBP subunit of TFIID is associated with the TATA element and that RNA polymerase II is paused downstream from the transcription start site. In order to identify new int...

journal_title：Nucleic acids research

authors： Weber JA,Gilmour DS

更新日期：1995-08-25 00:00:00

abstract：:Interactions between proteins bound to distant sites along a DNA molecule require bending and twisting deformations in the intervening DNA. In certain systems, the sterically allowed protein-DNA and protein-protein interactions are hypothesized to produce loops with distinct geometries that may also be thermodynamical...

journal_title：Nucleic acids research

authors： Lia G,Semsey S,Lewis DE,Adhya S,Bensimon D,Dunlap D,Finzi L

更新日期：2008-07-01 00:00:00

abstract：:Onconase, a cytotoxic ribonuclease from Rana pipiens, possesses pyroglutamate (Pyr) at the N-terminus and has a substrate preference for uridine-guanine (UG). To identify residues responsible for onconase's cytotoxicity, we cloned the rpr gene from genomic DNA and expressed it in Escherichia coli BL21(DE3). The recomb...

journal_title：Nucleic acids research

authors： Liao YD,Wang SC,Leu YJ,Wang CF,Chang ST,Hong YT,Pan YR,Chen C

更新日期：2003-09-15 00:00:00

abstract：:Primer Design Assistant (PDA) is a web interface primer design service combined with thermodynamic theory to evaluate the fitness of primers. It runs in a Linux-Apache-MySQL-PHP structure on a PC equipped with dual CPU (Intel Pentium III 1.4 GHz) and 512 Mb of RAM. A succinct user interface of PDA is accomplished by b...

journal_title：Nucleic acids research

authors： Chen SH,Lin CY,Cho CS,Lo CZ,Hsiung CA

更新日期：2003-07-01 00:00:00

abstract：:The Escherichia coli RuvC protein is an endonuclease that resolves Holliday junctions. In vitro, the protein shows efficient structure-specific binding of Holliday junctions, yet the rate of junction resolution is remarkably low. We have mapped the sites of cleavage on a synthetic junction through which a crossover ca...

journal_title：Nucleic acids research

authors： Shah R,Bennett RJ,West SC

更新日期：1994-07-11 00:00:00

abstract：:The biological data explosion of the 'omics' era requires fast access to many data types in rapidly growing data banks. The MRS server allows for very rapid queries in a large number of flat-file data banks, such as EMBL, UniProt, OMIM, dbEST, PDB, KEGG, etc. This server combines a fast and reliable backend with a ver...

journal_title：Nucleic acids research

authors： Hekkelman ML,Vriend G

更新日期：2005-07-01 00:00:00

abstract：:Type IV effectors (T4Es) are proteins produced by pathogenic bacteria to manipulate host cell gene expression and processes, divert the cell machinery for their own profit and circumvent the immune responses. T4Es have been characterized for some bacteria but many remain to be discovered. To help biologists identify p...

journal_title：Nucleic acids research

authors： Meyer DF,Noroy C,Moumène A,Raffaele S,Albina E,Vachiéry N

更新日期：2013-11-01 00:00:00

abstract：:1731, a Drosophila retrotransposon was first described as having a transcription activity which was negatively regulated by 20-hydroxyecdysone (20-OH), the steroid molting hormone of insects. Using constructions expressing the bacterial chloramphenicol-acetyltransferase (CAT) gene under the control of the entire or de...

journal_title：Nucleic acids research

authors： Ziarczyk P,Best-Belpomme M

更新日期：1991-10-25 00:00:00

abstract：:p53 is thought to function in the maintenance of genomic stability by modulating transcription and interacting with cellular proteins to influence the cell cycle, DNA repair and apoptosis. p53 mutations occur in >50% of human cancers, and cells which lack wild type p53 accumulate karyotypic abnormalities such as ampli...

journal_title：Nucleic acids research

authors： Buchhop S,Gibson MK,Wang XW,Wagner P,Stürzbecher HW,Harris CC

更新日期：1997-10-01 00:00:00

abstract：:ZFP57 is necessary for maintaining repressive epigenetic modifications at Imprinting control regions (ICRs). In mouse embryonic stem cells (ESCs), ZFP57 binds ICRs (ICRBS) and many other loci (non-ICRBS). To address the role of ZFP57 on all its target sites, we performed high-throughput and multi-locus analyses of inb...

journal_title：Nucleic acids research

authors： Riso V,Cammisa M,Kukreja H,Anvar Z,Verde G,Sparago A,Acurzio B,Lad S,Lonardo E,Sankar A,Helin K,Feil R,Fico A,Angelini C,Grimaldi G,Riccio A

更新日期：2016-09-30 00:00:00

abstract：:Conformations of 8-bromo-2'-[unk]-triisopropylbenzenesulfonyladenosine ([unk]) and its 3'-[unk]-isomer ([unk]) in solution have been determined by the use of intramolecular nuclear Overhauser effects in (1)H NMR spectroscopy. Compound [unk] has been proved to have a conformation in which the adenosine and benzene ring...

journal_title：Nucleic acids research

authors： Ueyama M,Tori K,Ikehara M,Kaneko M

更新日期：1974-06-01 00:00:00

abstract：:When averaged over the full yeast protein-protein interaction and transcriptional regulatory networks, protein hubs with many interaction partners or regulators tend to evolve significantly more slowly due to increased negative selection. However, genome-wide analysis of protein evolution in the subnetworks of associa...

journal_title：Nucleic acids research

authors： Wang Y,Franzosa EA,Zhang XS,Xia Y

更新日期：2010-10-01 00:00:00

abstract：:The circadian clock comprises transcriptional feedback loops of clock genes. Cryptochromes are essential components of the negative feedback loop in mammals as they inhibit CLOCK-BMAL1-mediated transcription. We purified mouse CRY1 (mCRY1) protein complexes from Sarcoma 180 cells to determine their roles in circadian ...

journal_title：Nucleic acids research

authors： Hara Y,Onishi Y,Oishi K,Miyazaki K,Fukamizu A,Ishida N

更新日期：2009-03-01 00:00:00

abstract：:The interactions of HIV-1 reverse transcriptase (HIV-1 RT) with a synthetic 53/19-mer DNA substrate was investigated. For this template-primer HIV-1 RT displayed a Km value of 20 nM. The 53/19-mer competitively inhibited DNA synthesis performed on poly (rC).oligo(dG) with Ki value of 260 nM. This corresponded well to ...

journal_title：Nucleic acids research

authors： Kruhøffer M,Urbanke C,Grosse F

更新日期：1993-08-25 00:00:00

abstract：:RNA silencing is an evolutionarily conserved mechanism triggered by double-stranded RNA that is processed into 21- to 24-nt small interfering (si)RNA or micro (mi)RNA by RNaseIII-like enzymes called Dicers. Gene regulations by RNA silencing have fundamental implications in a large number of biological processes that i...

journal_title：Nucleic acids research

authors： Uddin MN,Dunoyer P,Schott G,Akhter S,Shi C,Lucas WJ,Voinnet O,Kim JY

更新日期：2014-07-01 00:00:00

abstract：:We searched for nucleotide excision repair in human cell-free extracts using two assays: damage-specific incision of DNA (the nicking assay) and damage-stimulated DNA synthesis (the repair synthesis assay). HeLa cell-free extract prepared by the method of Manley et al. (1980) has a weak nicking activity on UV irradiat...

journal_title：Nucleic acids research

authors： Sibghatullah,Husain I,Carlton W,Sancar A

更新日期：1989-06-26 00:00:00

abstract：:Circular DNA can arise from all parts of eukaryotic chromosomes. In yeast, circular ribosomal DNA (rDNA) accumulates dramatically as cells age, however little is known about the accumulation of other chromosome-derived circles or the contribution of such circles to genetic variation in aged cells. We profiled circular...

journal_title：Nucleic acids research

authors： Prada-Luengo I,Møller HD,Henriksen RA,Gao Q,Larsen CE,Alizadeh S,Maretty L,Houseley J,Regenberg B

更新日期：2020-08-20 00:00:00

abstract：:JSNP is a repository of Japanese Single Nucleotide Polymorphism (SNP) data, begun in 2000 and developed through the Prime Minister's Millennium Project. The aim of this undertaking is to identify and collate up to 150 000 SNPs from the Japanese population, located in genes or in adjacent regions that might influence t...

journal_title：Nucleic acids research

authors： Hirakawa M,Tanaka T,Hashimoto Y,Kuroda M,Takagi T,Nakamura Y

更新日期：2002-01-01 00:00:00

abstract：:LocDB is a manually curated database with experimental annotations for the subcellular localizations of proteins in Homo sapiens (HS, human) and Arabidopsis thaliana (AT, thale cress). Currently, it contains entries for 19,604 UniProt proteins (HS: 13,342; AT: 6262). Each database entry contains the experimentally der...

journal_title：Nucleic acids research

authors： Rastogi S,Rost B

更新日期：2011-01-01 00:00:00

abstract：:Linker histones are an integral component of chromatin but how these proteins promote assembly of chromatin fibers and higher order structures and regulate gene expression remains an open question. Using Förster resonance energy transfer (FRET) approaches we find that association of a linker histone with oligonucleoso...

journal_title：Nucleic acids research

authors： Fang H,Wei S,Lee TH,Hayes JJ

更新日期：2016-11-02 00:00:00

abstract：:We have implemented a genome annotation system for prokaryotes called AGMIAL. Our approach embodies a number of key principles. First, expert manual annotators are seen as a critical component of the overall system; user interfaces were cyclically refined to satisfy their needs. Second, the overall process should be o...

journal_title：Nucleic acids research

authors： Bryson K,Loux V,Bossy R,Nicolas P,Chaillou S,van de Guchte M,Penaud S,Maguin E,Hoebeke M,Bessières P,Gibrat JF

更新日期：2006-07-19 00:00:00

abstract：:Topoisomerase II is an essential enzyme that is required for virtually every process that requires movement of DNA within the nucleus or the opening of the double helix. This enzyme helps to regulate DNA under- and overwinding and removes knots and tangles from the genetic material. In order to carry out its critical ...

journal_title：Nucleic acids research

authors： Deweese JE,Osheroff N

更新日期：2009-02-01 00:00:00

abstract：:A tetradecanucleotide U-A-G-C(U-C-G)2G-G-C-Up corresponding to bases 21-34 of a nascent sequence of formylmethionyl tRNA of E. coli has been synthesized by the joining of two combinations of chemically synthesized oligonucleotides: 1) U-A-G-C + U-C-G-U-C-G + G-G-C-Up and 2) U-A-G-C + U-C-G-U + C-G-G-G-C-Up. In reactio...

journal_title：Nucleic acids research

authors： Ohtsuka E,Doi T,Uemura H,Taniyama Y,Ikehara M

更新日期：1980-09-11 00:00:00

abstract：:Given the inherent limitations of in silico studies relying solely on DNA sequence analysis, the functional characterization of mammalian promoters and associated cis-regulatory elements requires experimental support, which demands cloning and analysis of putative promoter regions. Focusing on human chromosome 21, we ...

journal_title：Nucleic acids research

authors： Warnatz HJ,Querfurth R,Guerasimova A,Cheng X,Haas SA,Hufton AL,Manke T,Vanhecke D,Nietfeld W,Vingron M,Janitz M,Lehrach H,Yaspo ML

更新日期：2010-10-01 00:00:00

abstract：:Uracil-Specific Exision Reagent (USER) fusion is a recently developed technique that allows for assembly of multiple DNA fragments in a few simple steps. However, designing primers for USER fusion is both tedious and time consuming. Here, we present the Primer Help for USER (PHUSER) software, a novel tool for designin...

journal_title：Nucleic acids research

authors： Olsen LR,Hansen NB,Bonde MT,Genee HJ,Holm DK,Carlsen S,Hansen BG,Patil KR,Mortensen UH,Wernersson R

更新日期：2011-07-01 00:00:00

abstract：:Topoisomerases (topos) maintain DNA topology and influence DNA transaction processes by catalysing relaxation, supercoiling and decatenation reactions. In the cellular milieu, division of labour between different topos ensures topological homeostasis and control of central processes. In Escherichia coli, DNA gyrase is...

journal_title：Nucleic acids research

authors： Kumar R,Riley JE,Parry D,Bates AD,Nagaraja V

更新日期：2012-11-01 00:00:00

abstract：:Prostatic steroid binding protein, whose expression is stimulated by androgens, consists of two subunits: one containing the polypeptides C1 and C3 and the other containing C2 and C3. We have characterised genomic clones containing the C1 and C2 genes by restriction enzyme analysis and DNA sequencing. Both genes are 3...

journal_title：Nucleic acids research

authors： Parker M,Needham M,White R,Hurst H,Page M

更新日期：1982-09-11 00:00:00

abstract：:E. coli C6 rel- met- cys- was cultured in a fully supplemented medium and in media lacking cysteine or methionine. tRNA isolated from the three cultures containted, respectively, a normal complement of modified nucleosides; a deficiency in thiolated nucleosides and a deficiency in methylated nucleosides. Both sulfur-d...

journal_title：Nucleic acids research

authors： Agris PF,Armstrong DJ,Schäfer KP,Söll D

更新日期：1975-05-01 00:00:00

abstract：:Arylsulfatase, produced by Chlamydomonas reinhardtii during sulfur-limited growth, is secreted into the periplasmic space and is readily assayed using a chromogenic substrate. To assess the usefulness of the gene encoding arylsulfatase (ars) as a reporter gene in C. reinhardtii, we have fused the promoter region of th...

journal_title：Nucleic acids research

authors： Davies JP,Weeks DP,Grossman AR

更新日期：1992-06-25 00:00:00

abstract：:The Phospho.ELM resource (http://phospho.elm.eu.org) is a relational database designed to store in vivo and in vitro phosphorylation data extracted from the scientific literature and phosphoproteomic analyses. The resource has been actively developed for more than 7 years and currently comprises 42,574 serine, threoni...

journal_title：Nucleic acids research

authors： Dinkel H,Chica C,Via A,Gould CM,Jensen LJ,Gibson TJ,Diella F

更新日期：2011-01-01 00:00:00