Bhageerath: an energy based web enabled computer software suite for limiting the search space of tertiary structures of small globular proteins.

abstract：:Multiplexed tandem PCR (MT-PCR) is a process for highly multiplexed gene expression profiling. In the first step, multiple primer pairs are added to the RNA to be analysed together with reverse transcriptase and Taq DNA polymerase. Following reverse transcription, the multiplexed amplicons are simultaneously amplified...

journal_title：Nucleic acids research

authors： Stanley KK,Szewczuk E

更新日期：2005-11-24 00:00:00

abstract：:RNA pseudoknots are functional structure elements with key roles in viral and cellular processes. Prediction of a pseudoknotted minimum free energy structure is an NP-complete problem. Practical algorithms for RNA structure prediction including restricted classes of pseudoknots suffer from high runtime and poor accura...

journal_title：Nucleic acids research

authors： Sperschneider J,Datta A

更新日期：2010-04-01 00:00:00

abstract：:For the first time mosaic nucleic acids composed of 50% RNA and 50% DNA can be obtained as transcripts with T7 RNA polymerase. Two NTPs could be replaced simultaneously in a transcription reaction. This means more than 40 deoxynucleotides were inserted in one transcript. Previously, a maximum of two deoxynucleotides c...

journal_title：Nucleic acids research

authors： Conrad F,Hanne A,Gaur RK,Krupp G

更新日期：1995-06-11 00:00:00

abstract：:The highly charged DNA chain may be either in an extended conformation, the coil, or condensed into a highly dense and ordered structure, the toroid. The transition, also called collapse of the chain, can be triggered in different ways, for example by changing the ionic conditions of the solution. We observe individua...

journal_title：Nucleic acids research

authors： Sung B,Leforestier A,Livolant F

更新日期：2016-02-18 00:00:00

abstract：:Eukaryotic gene expression is regulated by enhancer-promoter interactions but the molecular mechanisms that govern specificity have remained elusive. Genome-wide studies utilizing STARR-seq identified two enhancer classes in Drosophila that interact with different core promoters: housekeeping enhancers (hkCP) and deve...

journal_title：Nucleic acids research

authors： Cubeñas-Potts C,Rowley MJ,Lyu X,Li G,Lei EP,Corces VG

更新日期：2017-02-28 00:00:00

abstract：:Partial restriction digestion is used to map restriction sites and the location of genes within yeast artificial chromosomes (YACs). Locus-specific probes are hybridised to the partially digested YAC DNA and the fragments to which they hybridise are compared with the pattern of partial digestion products that include ...

journal_title：Nucleic acids research

authors： Shields DC,Butler A,Mosurski KR,Walsh MT,Whitehead AS

更新日期：1996-11-15 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

authors： Legerski RJ,Hodnett JL,Gray HB Jr

更新日期：1978-05-01 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

authors： Hauswirth WW,Clayton DA

更新日期：1985-11-25 00:00:00

abstract：:Transcription of RNA from the beta-globin (major) gene in nuclei from induced mouse erythroleukemia cells terminates within the region between 700 to 2000 bases downstream from the poly(A) addition site, but not at particularly favored sites. In addition we present the first analysis of in vivo labeled RNA from a cell...

journal_title：Nucleic acids research

authors： Citron B,Falck-Pedersen E,Salditt-Georgieff M,Darnell JE Jr

更新日期：1984-11-26 00:00:00

abstract：:Light-inducible systems allow spatiotemporal control of a variety of biological activities. Here, we report newly optimized optogenetic tools to induce transcription with light in mammalian cells, using the Arabidopsis photoreceptor Flavin Kelch-repeat F-box 1 (FKF1) and its binding partner GIGANTEA (GI) as well as CR...

journal_title：Nucleic acids research

authors： Quejada JR,Park SE,Awari DW,Shi F,Yamamoto HE,Kawano F,Jung JC,Yazawa M

更新日期：2017-11-16 00:00:00

abstract：:Treatment of NIH 3T3 cells with trichostatin A (TSA), an inhibitor of histone deacetylase (HDAC), resulted in a dose-dependent increase in transcription from a rDNA reporter and from endogenous rRNA genes. Chromatin immunoprecipitation using anti-acetyl-histone H4 antibodies demonstrated a direct effect of TSA on the ...

journal_title：Nucleic acids research

authors： Hirschler-Laszkiewicz I,Cavanaugh A,Hu Q,Catania J,Avantaggiati ML,Rothblum LI

更新日期：2001-10-15 00:00:00

abstract：:Digestion of isolated Friend erythroleukemic cell nuclei with DNase I under conditions which selectively destroy the DNA of transcriptionally "active" genes releases into the supernatant fraction proteins of the non-histone "High Mobility Group" (HMGs). Two of these, HMG-14 and HMG-17(identified by solubility in trich...

journal_title：Nucleic acids research

authors： Reeves R,Candido EP

更新日期：1980-05-10 00:00:00

abstract：:Analyses of secondary structures proposed for ribosomal RNA's show that, of the different kinds of base pairs directly adjoining the ends of postulated double-helical regions, only A-G with A at the 5' end significantly exceeds the number expected for a random base distribution. An A(syn)-G(trans) hydrogen-bonded base...

journal_title：Nucleic acids research

authors： Traub W,Sussman JL

更新日期：1982-04-24 00:00:00

abstract：:Bacteria belonging to the class Mollicutes were among the first ones to be selected for complete genome sequencing because of the minimal size of their genomes and their pathogenicity for humans and a broad range of animals and plants. At this time six genome sequences have been publicly released (Mycoplasma genitaliu...

journal_title：Nucleic acids research

authors： Barré A,de Daruvar A,Blanchard A

更新日期：2004-01-01 00:00:00

abstract：:We previously constructed a multiribozyme expression vector by combining cis- and trans-acting ribozymes and we showed that several ribozymes, each directed against a different target in the HIV genome and acting independently in a 'shotgun' manner, markedly increased the efficiency of cleavage of HIV RNA in vitro [Oh...

journal_title：Nucleic acids research

authors： Yuyama N,Ohkawa J,Koguma T,Shirai M,Taira K

更新日期：1994-11-25 00:00:00

abstract：:Allostery is comprehensively studied for natural macromolecules, such as proteins and nucleic acids. Here, we present controllable allostery of synthetic DNA nanostructure-enzyme systems. Rational designs of the synthetic allosteric systems are based on an in-depth understanding of allosteric sites with several types ...

journal_title：Nucleic acids research

authors： Yan Q,Wang Y,Shi J,Wei B

更新日期：2020-07-27 00:00:00

abstract：:The National Center for Biotechnology Information (NCBI) provides a large suite of online resources for biological information and data, including the GenBank® nucleic acid sequence database and the PubMed database of citations and abstracts for published life science journals. The Entrez system provides search and re...

journal_title：Nucleic acids research

authors： NCBI Resource Coordinators.

更新日期：2018-01-04 00:00:00

abstract：:Complete genomes of three closely related Gram-positive bacteria Streptococcus pyogenes, Streptococcus pneumoniae and Lactococcus lactis are analyzed for abundances of short DNA sequence motifs (frequent words). The character and extent of frequent words are strikingly different among these genomes. The frequent words...

journal_title：Nucleic acids research

authors： Mrázek J,Gaynon LH,Karlin S

更新日期：2002-10-01 00:00:00

abstract：:Double-stranded (ds) oligodeoxynucleotides (29mers) containing an O6-ethylguanine (O6-EtGua) flanked 5' and 3' by different bases (5'..TGT..3'; 5'..CGG..3', 5'..GGT..3'; 5'..GGG..3'; 5'..GGA..3') were synthesized to investigate the binding and repair characteristics of recombinant human O6-alkylguanine-DNA alkyltransf...

journal_title：Nucleic acids research

authors： Bender K,Federwisch M,Loggen U,Nehls P,Rajewsky MF

更新日期：1996-06-01 00:00:00

abstract：:This year's Database Issue of Nucleic Acids Research contains 152 papers that include descriptions of 54 new databases and update papers on 98 databases, of which 16 have not been previously featured in NAR As always, these databases cover a broad range of molecular biology subjects, including genome structure, gene e...

journal_title：Nucleic acids research

authors： Galperin MY,Fernández-Suárez XM,Rigden DJ

更新日期：2017-01-04 00:00:00

abstract：:Alternative splicing of mRNA precursors results in multiple protein variants from a single gene and is critical for diverse cellular processes and development. Xist encodes a long noncoding RNA which is a central player to induce X-chromosome inactivation in female mammals and has two major splicing variants: long and...

journal_title：Nucleic acids research

authors： Yue M,Ogawa Y

更新日期：2018-03-16 00:00:00

abstract：:RNA-based therapeutics, i.e. the utilization of synthetic RNA molecules to alter cellular functions, have the potential to address targets which are currently out of scope for traditional drug design pipelines. This potential however hinges on the ability to selectively deliver and internalize therapeutic RNAs into ce...

journal_title：Nucleic acids research

authors： Wang Y,Hoinka J,Liang Y,Adamus T,Swiderski P,Przytycka TM

更新日期：2018-09-19 00:00:00

abstract：:Stringent starvation protein A (SspA) is an RNA polymerase (RNAP)-associated protein involved in nucleotide metabolism, acid tolerance and virulence of bacteria. Despite extensive biochemical and genetic analyses, the precise regulatory role of SspA in transcription is still unknown, in part, because of a lack of stru...

journal_title：Nucleic acids research

authors： Wang F,Shi J,He D,Tong B,Zhang C,Wen A,Zhang Y,Feng Y,Lin W

更新日期：2020-09-25 00:00:00

abstract：:A linear DNA plasmid, designated pLLE1, has been isolated from a mitochondrial fraction of a strain of Lentinus edodes. pLLE1(11.0 kbp) was sensitive to the 3'----5'-acting exonuclease III and resistant to the 5'----3'-acting lambda exonuclease. It showed no homology with mitochondrial and nuclear genomic DNAs of plas...

journal_title：Nucleic acids research

authors： Katayose Y,Kajiwara S,Shishido K

更新日期：1990-03-25 00:00:00

abstract：:Chromatin assembly factor 1 (CAF-1) is a histone H3-H4 chaperone that deposits newly synthesized histone (H3-H4)2 tetramers during replication-coupled nucleosome assembly. However, how CAF-1 functions in this process is not yet well understood. Here, we report the crystal structure of C terminus of Cac1 (Cac1C), a sub...

journal_title：Nucleic acids research

authors： Zhang K,Gao Y,Li J,Burgess R,Han J,Liang H,Zhang Z,Liu Y

更新日期：2016-06-20 00:00:00

abstract：:A screening for human proteins capable of interacting with influenza virus NS1 has been carried out using the two-hybrid genetic trap in yeast. A cDNA corresponding to the human homologue of Drosophila melanogaster Staufen protein (hStaufen) was isolated that fulfilled all genetic controls of the two-hybrid protocol. ...

journal_title：Nucleic acids research

authors： Falcón AM,Fortes P,Marión RM,Beloso A,Ortín J

更新日期：1999-06-01 00:00:00

abstract：:The cDNA of human DNA polymerase delta was cloned. The cDNA had a length of 3.5 kb and encoded a protein of 1107 amino acid residues with a calculated molecular mass of 124 kDa. Northern blot analysis showed that the cDNA hybridized to a mRNA of 3.4 kb. Monoclonal and polyclonal antibodies to the C-terminal 20 residue...

journal_title：Nucleic acids research

authors： Yang CL,Chang LS,Zhang P,Hao H,Zhu L,Toomey NL,Lee MY

更新日期：1992-02-25 00:00:00

abstract：:Competition binding and UV melting studies of a DNA model system consisting of three, four or five mutually complementary oligonucleotides demonstrate that unpaired bases at the branch point stabilize three- and five-way junction loops but destabilize four-way junctions. The inclusion of unpaired nucleotides permits t...

journal_title：Nucleic acids research

authors： Kadrmas JL,Ravin AJ,Leontis NB

更新日期：1995-06-25 00:00:00

abstract：:A rearrangement of the mitochondrial genome of a long lived mutant of Podospora anserina is presented. It consists in the insertion of 191 bp of the LrDNA gene (coding for the large ribosomal RNA) at the junction between exon1 and intron alpha of gene co1 (coding for subunit 1 of cytochrome oxidase). This insertion is...

journal_title：Nucleic acids research

authors： Sainsard-Chanet A,Begel O

更新日期：1990-02-25 00:00:00

abstract：:Active DNA demethylation is crucial for epigenetic control, but the underlying enzymatic mechanisms are incompletely understood. REPRESSOR OF SILENCING 1 (ROS1) is a 5-methylcytosine (5-meC) DNA glycosylase/lyase that initiates DNA demethylation in plants through a base excision repair process. The enzyme binds DNA no...

journal_title：Nucleic acids research

authors： Parrilla-Doblas JT,Ponferrada-Marín MI,Roldán-Arjona T,Ariza RR

更新日期：2013-10-01 00:00:00