Dynamics of filamentous viral RNPs prior to egress.

abstract：:Gene duplications are a major source of evolutionary innovations. Understanding the functional divergence of duplicates and their role in genetic robustness is an important challenge in biology. Previously, analyses of genetic robustness were primarily focused on duplicates essentiality and epistasis in several labora...

journal_title：Nucleic acids research

authors： Plata G,Vitkup D

更新日期：2014-02-01 00:00:00

abstract：:Antisense oligodeoxynucleotides targeted to Ha-ras mRNA have been designed to discriminate between the codon 12-mutated oncogene and the normal proto-oncogene. An in vitro assay using two different sources of RNase H (rabbit reticulocyte lysates and nuclear extract from HeLa cells) was used to characterize oligonucleo...

journal_title：Nucleic acids research

authors： Duroux I,Godard G,Boidot-Forget M,Schwab G,Hélène C,Saison-Behmoaras T

更新日期：1995-09-11 00:00:00

abstract：:Upon HIV-1 infection of a target cell, the viral reverse transcriptase (RT) copies the genomic RNA to synthesize the viral DNA. The genomic RNA is within the incoming HIV-1 core where it is coated by molecules of nucleocapsid (NC) protein that chaperones the reverse transcription process. Indeed, the RT chaperoning pr...

journal_title：Nucleic acids research

authors： Grigorov B,Bocquin A,Gabus C,Avilov S,Mély Y,Agopian A,Divita G,Gottikh M,Witvrouw M,Darlix JL

更新日期：2011-07-01 00:00:00

abstract：:The ciliate Tetrahymena thermophila is an important eukaryotic model organism that has been used in pioneering studies of general phenomena, such as ribozymes, telomeres, chromatin structure and genome reorganization. Recent work has shown that Tetrahymena has many classes of small RNA molecules expressed during veget...

journal_title：Nucleic acids research

authors： Andersen KL,Nielsen H

更新日期：2012-02-01 00:00:00

abstract：:The interaction of RNase T1 with calf thymus DNA was studied using uv difference spectroscopy and the effect of the enzyme on DNA melting. There was no indication of RNase T1 binding with native DNA. A prominent difference spectrum for RNase T1 binding with denatured DNA (d-DNA) was observed at pH 5, 25 degrees and lo...

journal_title：Nucleic acids research

authors： Walz FG,Biddlecome S,Hooverman L

更新日期：1975-01-01 00:00:00

abstract：:The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, experimentally defined by a transcription start site (TSS). Access to promoter sequences is provided by pointers to positions in the corresponding genomes. Promoter evidence comes from conventional TSS mappi...

journal_title：Nucleic acids research

authors： Schmid CD,Perier R,Praz V,Bucher P

更新日期：2006-01-01 00:00:00

abstract：:Recombinase proteins assembled into helical filaments on DNA are believed to be the catalytic core of homologous recombination. The assembly, disassembly and dynamic rearrangements of this structure must drive the DNA strand exchange reactions of homologous recombination. The sensitivity of eukaryotic recombinase acti...

journal_title：Nucleic acids research

authors： Ristic D,Modesti M,van der Heijden T,van Noort J,Dekker C,Kanaar R,Wyman C

更新日期：2005-06-08 00:00:00

abstract：:In the last decade polycistronic vectors have become essential tools for both basic science and gene therapy applications. In order to co-express heterologous polypeptides, different systems have been developed from Internal Ribosome Entry Site (IRES) based vectors to the use of the 2A peptide. Unfortunately, these me...

journal_title：Nucleic acids research

authors： Fallot S,Ben Naya R,Hieblot C,Mondon P,Lacazette E,Bouayadi K,Kharrat A,Touriol C,Prats H

更新日期：2009-11-01 00:00:00

abstract：:DNA was purified from double minutes isolated from MTX-resistant EL4/8 mouse lymphoma cells, digested to completion with Bam H1 restriction endonuclease and cloned in lambda-1059. The properties of the library suggest that the DNA from which it was made was not detectably contaminated with non-dm chromosome material, ...

journal_title：Nucleic acids research

authors： Caizzi R,Bostock CJ

更新日期：1982-11-11 00:00:00

abstract：:The POU domain transcription factor, Oct-2, is essential for the B cell-specific expression of CD36 in mouse B cells. In order to determine how Oct-2 mediates expression of CD36 in B cells, we cloned and analysed the mouse CD36 promoter. In contrast to the human CD36 promoter, the mouse promoter contains a consensus o...

journal_title：Nucleic acids research

authors： Shore P,Dietrich W,Corcoran LM

更新日期：2002-04-15 00:00:00

abstract：:The PRISM web server enables fast and accurate prediction of protein-protein interactions (PPIs). The prediction algorithm is knowledge-based. It combines structural similarity and accounts for evolutionary conservation in the template interfaces. The predicted models are stored in its repository. Given two protein st...

journal_title：Nucleic acids research

authors： Baspinar A,Cukuroglu E,Nussinov R,Keskin O,Gursoy A

更新日期：2014-07-01 00:00:00

abstract：:We have established a sensitive, monoclonal antibody (Mab)-based procedure permitting the selective enrichment of sequences containing the miscoding alkylation product O6-ethylguanine (O6-EtGua) from mammalian DNA. H5 rat hepatoma cells were reacted with the N-nitroso carcinogen N-ethyl-N-nitrosourea in vitro, to give...

journal_title：Nucleic acids research

authors： Hochleitner K,Thomale J,Nikitin AYu,Rajewsky MF

更新日期：1991-08-25 00:00:00

abstract：:Molecular dynamics simulations were performed on the duplex DNA dodecamers d(CGCGAA TT CGCG): d(CGCGAATTCGCG) and d(GCACGAA TT AAG): d(CTTAATTCGTGC), where TT denotes a cis, syn cyclobutane thymine dimer. The constant temperature and pressure algorithm of the AMBER 4.1 molecular-modeling package was used with explicit...

journal_title：Nucleic acids research

authors： Cooney MG,Miller JH

更新日期：1997-04-01 00:00:00

abstract：:GenBank(®) (http://www.ncbi.nlm.nih.gov/genbank/) is a comprehensive database that contains publicly available nucleotide sequences for over 300 000 formally described species. These sequences are obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing proj...

journal_title：Nucleic acids research

authors： Benson DA,Clark K,Karsch-Mizrachi I,Lipman DJ,Ostell J,Sayers EW

更新日期：2015-01-01 00:00:00

abstract：:DNA fragments containing mispaired and modified bases, bulges, lesions and specific sequences have altered conformation. Methods for separating complex samples of DNA fragments based on conformation but independent of length have many applications, including (i) separation of mismatched or unmatched DNA fragments from...

journal_title：Nucleic acids research

authors： Gunnarsson GH,Thormar HG,Gudmundsson B,Akesson L,Jonsson JJ

更新日期：2004-02-03 00:00:00

abstract：:The gene for human apolipoprotein (apo) A-II has been isolated from a human genomic DNA library. The cloned fragment was approximately 14 kilobase-pair (kb) long, and extended about 9.0 kb upstream as well as 3.5 kb downstream from the apoA-II gene, which was contained within a 3.1 kb HindIII fragment of human DNA. Th...

journal_title：Nucleic acids research

authors： Lackner KJ,Law SW,Brewer HB Jr

更新日期：1985-06-25 00:00:00

abstract：:Bacterial transcription factors often function as DNA-binding proteins that selectively activate or repress promoters, although the biochemical mechanisms vary. In most well-understood examples, activators function by either increasing the affinity of RNA polymerase (RNAP) for the target promoter, or by increasing the...

journal_title：Nucleic acids research

authors： Gaballa A,MacLellan S,Helmann JD

更新日期：2012-04-01 00:00:00

abstract：:Optical DNA mapping (ODM) allows visualization of long-range sequence information along single DNA molecules. The data can for example be used for detecting long range structural variations, for aiding DNA sequence assembly of complex genomes and for mapping epigenetic marks and DNA damage across the genome. ODM tradi...

journal_title：Nucleic acids research

authors： Müller V,Dvirnas A,Andersson J,Singh V,Kk S,Johansson P,Ebenstein Y,Ambjörnsson T,Westerlund F

更新日期：2019-09-05 00:00:00

abstract：:Pseudomonas aeruginosa is an opportunistic pathogen with a relatively large genome, and has been shown to routinely lose genomic fragments during environmental selection. However, the underlying molecular mechanisms that promote chromosomal deletion are still poorly understood. In a recent study, we showed that by del...

journal_title：Nucleic acids research

authors： Shen M,Zhang H,Shen W,Zou Z,Lu S,Li G,He X,Agnello M,Shi W,Hu F,Le S

更新日期：2018-05-18 00:00:00

abstract：:A growing number of whole genome sequencing projects, in combination with development of phylogenetic methods for reconstructing gene evolution, have provided us with a window into genomes that existed millions, and even billions, of years ago. Ancestral Genomes (http://ancestralgenomes.org) is a resource for comprehe...

journal_title：Nucleic acids research

authors： Huang X,Albou LP,Mushayahama T,Muruganujan A,Tang H,Thomas PD

更新日期：2019-01-08 00:00:00

abstract：:Calf thymus DNA polymerase alpha (pol alpha) and bacteriophage T4 DNA polymerase (pol T4) were exploited as model enzymes to investigate the molecular mechanism of inhibitory action of N2-(p-n-butylphenyl)dGTP (BuPdGTP) and 2-(p-n-butyl-anilino)dATP (BuAdATP) on the BuPdNTP-susceptible alpha polymerase family. Kinetic...

journal_title：Nucleic acids research

authors： Khan NN,Wright GE,Brown NC

更新日期：1991-04-11 00:00:00

abstract：:We have used gel retardation analysis to show that human DNA topoisomerase IIbeta can bind a 40 bp linear duplex containing a single DNA topoisomerase IIbeta cleavage site. Furthermore, we demonstrate for the first time that human DNA topoisomerase IIbeta binds to four-way junction DNA. This supports previous suggesti...

journal_title：Nucleic acids research

authors： West KL,Austin CA

更新日期：1999-02-15 00:00:00

abstract：:The Galaxy HiCExplorer provides a web service at https://hicexplorer.usegalaxy.eu. It enables the integrative analysis of chromosome conformation by providing tools and computational resources to pre-process, analyse and visualize Hi-C, Capture Hi-C (cHi-C) and single-cell Hi-C (scHi-C) data. Since the last publicatio...

journal_title：Nucleic acids research

authors： Wolff J,Rabbani L,Gilsbach R,Richard G,Manke T,Backofen R,Grüning BA

更新日期：2020-07-02 00:00:00

abstract：:An unexpectedly high number of regulatory RNAs have been recently discovered that fine-tune the function of genes at all levels of expression. We employed Genomic SELEX, a method to identify protein-binding RNAs encoded in the genome, to search for further regulatory RNAs in Escherichia coli. We used the global regula...

journal_title：Nucleic acids research

authors： Lorenz C,Gesell T,Zimmermann B,Schoeberl U,Bilusic I,Rajkowitsch L,Waldsich C,von Haeseler A,Schroeder R

更新日期：2010-06-01 00:00:00

abstract：:Insertion of microRNA target sequences into the flavivirus genome results in selective tissue-specific attenuation and host-range restriction of live attenuated vaccine viruses. However, previous strategies for miRNA-targeting did not incorporate a mechanism to prevent target elimination under miRNA-mediated selective...

journal_title：Nucleic acids research

authors： Tsetsarkin KA,Liu G,Shen K,Pletnev AG

更新日期：2016-04-20 00:00:00

abstract：:Lens epithelium-derived growth factor/p75 (LEDGF/p75) is a transcriptional coactivator involved in stress response, autoimmune disease, cancer and HIV replication. A fusion between the nuclear pore protein NUP98 and LEDGF/p75 has been found in human acute and chronic myeloid leukemia and association of LEDGF/p75 with ...

journal_title：Nucleic acids research

authors： De Rijck J,Bartholomeeusen K,Ceulemans H,Debyser Z,Gijsbers R

更新日期：2010-10-01 00:00:00

abstract：:Spliced leader (SL) trans-splicing is a critical element of gene expression in a number of eukaryotic groups. This process is arguably best understood in nematodes, where biochemical and molecular studies in Caenorhabditis elegans and Ascaris suum have identified key steps and factors involved. Despite this, the preci...

journal_title：Nucleic acids research

authors： Philippe L,Pandarakalam GC,Fasimoye R,Harrison N,Connolly B,Pettitt J,Müller B

更新日期：2017-08-21 00:00:00

abstract：:Previously, we developed jumping profile hidden Markov model (jpHMM), a new method to detect recombinations in HIV-1 genomes. The jpHMM predicts recombination breakpoints in a query sequence and assigns to each position of the sequence one of the major HIV-1 subtypes. Since incorrect subtype assignment or recombinatio...

journal_title：Nucleic acids research

authors： Schultz AK,Zhang M,Bulla I,Leitner T,Korber B,Morgenstern B,Stanke M

更新日期：2009-07-01 00:00:00

abstract：:The cartilage matrix is composed of characteristic components including type II collagen, aggrecan and link protein. In this paper, we report two DNA elements that regulate the link protein gene. Using transient transfection assays with link protein gene constructs in chondrocytes, chloramphenicol acetyl transferase (...

journal_title：Nucleic acids research

authors： Rhodes C,Yamada Y

更新日期：1995-06-25 00:00:00

abstract：:The International Committee on Taxonomy of Viruses (ICTV) is charged with the task of developing, refining, and maintaining a universal virus taxonomy. This task encompasses the classification of virus species and higher-level taxa according to the genetic and biological properties of their members; naming virus taxa;...

journal_title：Nucleic acids research

authors： Lefkowitz EJ,Dempsey DM,Hendrickson RC,Orton RJ,Siddell SG,Smith DB

更新日期：2018-01-04 00:00:00