Deciphering the molecular mechanisms underlying the binding of the TWIST1/E12 complex to regulatory E-box sequences.

abstract：:The Network of Cancer Genes (NCG) collects and integrates data on 736 human genes that are mutated in various types of cancer. For each gene, NCG provides information on duplicability, orthology, evolutionary appearance and topological properties of the encoded protein in a comprehensive version of the human protein-p...

journal_title：Nucleic acids research

authors： Syed AS,D'Antonio M,Ciccarelli FD

更新日期：2010-01-01 00:00:00

abstract：:The sequence requirements for transcriptional stimulation of the adenovirus major late promoter (MLP) by the products of the early transcription unit Ela and by the replication of viral DNA were analyzed by in vitro transcription. Sequences upstream of +33 are involved in the moderate Ela-responsiveness of the MLP, wh...

journal_title：Nucleic acids research

authors： Jansen-Durr P,Boeuf H,Kédinger C

更新日期：1988-05-11 00:00:00

abstract：:The 3374 nucleotide sequence of RNA2 from the British PEBV strain SP5 has been determined. The RNA includes three open reading frames flanked by 5' and 3' noncoding regions of 509 and 480 nucleotides. The open reading frames specify coat protein, a 29.6K product homologous to the 29.1K product of TRV(TCM) RNA2 and a 2...

journal_title：Nucleic acids research

authors： Goulden MG,Lomonossoff GP,Davies JW,Wood KR

更新日期：1990-08-11 00:00:00

abstract：:The 0.048502 megabase (Mb), primarily double-stranded DNA of bacteriophage lambda has single-stranded, complementary termini (cohesive ends) that undergo either spontaneous intramolecular joining to form open circular DNA or spontaneous intermolecular joining to form linear, end-to-end oligomeric DNAs (concatemers); c...

journal_title：Nucleic acids research

authors： Louie D,Serwer P

更新日期：1991-06-11 00:00:00

abstract：:The transactivator responsive region (TAR) present in the 5'-NTR of the HIV-1 genome represents a potential target for antiretroviral intervention and a model system for the development of specific inhibitors of RNA-protein interaction. Earlier, we have shown that an anti-TAR polyamide nucleotide analog (PNA(TAR)) con...

journal_title：Nucleic acids research

authors： Tripathi S,Chaubey B,Ganguly S,Harris D,Casale RA,Pandey VN

更新日期：2005-08-02 00:00:00

abstract：:The interactions of self-complementary oligonucleotides with a group of metal-mediated DNA-binding drugs, including chromomycin A(3), mithramycin and the novel compound UK-1, were examined via electrospray ionization quadrupole ion trap mass spectrometry. Both chromomycin and mithramycin were shown to bind preferentia...

journal_title：Nucleic acids research

authors： Reyzer ML,Brodbelt JS,Kerwin SM,Kumar D

更新日期：2001-11-01 00:00:00

abstract：:Bacillus subtilis plasmid pGR71 is a promoter-probe shuttle vector derived from pUB110. The expression of the cat gene on pGR71 in B. subtilis requires the insertion of a Bacillus promoter and a ribosomal binding site (RBS) into the HindIII cloning site immediately upstream from the cat gene. A recombinant plasmid of ...

journal_title：Nucleic acids research

authors： Fujiwara S,Tsubokura N,Kurusu Y,Minami K,Kobayashi Y

更新日期：1990-02-25 00:00:00

abstract：:Nucleosomes are the most abundant protein-DNA complexes in eukaryotes that provide compaction of genomic DNA and are implicated in regulation of transcription, DNA replication and repair. The details of DNA positioning on the nucleosome and the DNA conformation can provide key regulatory signals. Hydroxyl-radical foot...

journal_title：Nucleic acids research

authors： Shaytan AK,Xiao H,Armeev GA,Wu C,Landsman D,Panchenko AR

更新日期：2017-09-19 00:00:00

abstract：:We have exploited properties of photosensitizers to study an aspect of the packing of chromatin in the cell nucleus. The fluorescent photosensitizers mesotetra(3-hydroxyphenyl) porphyrin and Photofrin II were both localized in the nuclear membrane and other membrane structures, but could not be found inside the nuclei...

journal_title：Nucleic acids research

authors： Kvam E,Stokke T,Moan J,Steen HB

更新日期：1992-12-25 00:00:00

abstract：:Restriction endonucleases are highly specific in recognizing the particular DNA sequence they act on. However, their activity is affected by sequence context, enzyme concentration and buffer composition. Changes in these factors may lead to either ineffective cleavage at the cognate restriction site or relaxed specifi...

journal_title：Nucleic acids research

authors： Kamps-Hughes N,Quimby A,Zhu Z,Johnson EA

更新日期：2013-06-01 00:00:00

abstract：:The webPDBinder (http://pdbinder.bio.uniroma2.it/PDBinder) is a web server for the identification of small ligand-binding sites in a protein structure. webPDBinder searches a protein structure against a library of known binding sites and a collection of control non-binding pockets. The number of similarities identifie...

journal_title：Nucleic acids research

authors： Bianchi V,Mangone I,Ferrè F,Helmer-Citterich M,Ausiello G

更新日期：2013-07-01 00:00:00

abstract：:Chromatin distribution is not uniform along the human genome. In most genes there is a promoter-associated nucleosome free region (NFR) followed by an array of nucleosomes towards the gene body in which the first (+1) nucleosome is strongly positioned. The function of this characteristic chromatin distribution in tran...

journal_title：Nucleic acids research

authors： Jimeno-González S,Ceballos-Chávez M,Reyes JC

更新日期：2015-03-31 00:00:00

abstract：:The reported binding preference of human hnRNP protein A1 for the 3'-splice site of some introns (Swanson and Dreyfuss (1988) EMBO J. 7, 3519-3529; Mayrand and Pederson (1990) Nucleic Acids Res. 18, 3307-3318) was tested by assaying in vitro the binding of purified recombinant A1 protein (expressed in bacteria) to syn...

journal_title：Nucleic acids research

authors： Buvoli M,Cobianchi F,Biamonti G,Riva S

更新日期：1990-11-25 00:00:00

abstract：:Microbial enzymes have many known applications as biocatalysts in biotechnology, agriculture, medical and other industries. However, only a few enzymes are currently employed for such commercial applications. In this scenario, the current onslaught of metagenomic data provides a new unexplored treasure trove of genomi...

journal_title：Nucleic acids research

authors： Sharma VK,Kumar N,Prakash T,Taylor TD

更新日期：2010-01-01 00:00:00

abstract：:The MalaCards human disease database (http://www.malacards.org/) is an integrated compendium of annotated diseases mined from 68 data sources. MalaCards has a web card for each of ∼20 000 disease entries, in six global categories. It portrays a broad array of annotation topics in 15 sections, including Summaries, Symp...

journal_title：Nucleic acids research

authors： Rappaport N,Twik M,Plaschkes I,Nudel R,Iny Stein T,Levitt J,Gershoni M,Morrey CP,Safran M,Lancet D

更新日期：2017-01-04 00:00:00

abstract：:Cytokines are cell-to-cell signaling proteins that play a central role in immune development, pathogen responses, and diseases. Cytokines are highly regulated at the transcriptional level by combinations of transcription factors (TFs) that recruit cofactors and the transcriptional machinery. Here, we mined through thr...

journal_title：Nucleic acids research

authors： Carrasco Pro S,Dafonte Imedio A,Santoso CS,Gan KA,Sewell JA,Martinez M,Sereda R,Mehta S,Fuxman Bass JI

更新日期：2018-10-12 00:00:00

abstract：:The Prp19-associated complex is required for spliceosome activation by stabilizing the binding of U5 and U6 on the spliceosome after the release of U4. The complex comprises at least eight proteins, among which Ntc90 and Ntc77 contain multiple tetratricopeptide repeat (TPR) elements. We have previously shown that Ntc9...

journal_title：Nucleic acids research

authors： Chen HC,Chang KJ,Su YL,Huang YH,Cheng SC

更新日期：2014-10-29 00:00:00

abstract：:The replication of the genome is a highly organized process, both spatially and temporally. Although a lot is known on the composition of the basic replication machinery, how its activity is regulated is mostly unknown. Several chromatin properties have been proposed as regulators, but a potential role of the nuclear ...

journal_title：Nucleic acids research

authors： Heinz KS,Casas-Delucchi CS,Török T,Cmarko D,Rapp A,Raska I,Cardoso MC

更新日期：2018-07-06 00:00:00

abstract：:Single cell RNA-seq experiments provide valuable insight into cellular heterogeneity but suffer from low coverage, 3' bias and technical noise. These unique properties of single cell RNA-seq data make study of alternative splicing difficult, and thus most single cell studies have restricted analysis of transcriptome v...

journal_title：Nucleic acids research

authors： Welch JD,Hu Y,Prins JF

更新日期：2016-05-05 00:00:00

abstract：:Interactions between subunits in the Saccharomyces cerevisiae ribosome are mediated by universal and eukaryote-specific intersubunit bridges. Universal bridges are positioned close to the ribosomal functional centers, while eukaryote-specific bridges are mainly located on the periphery of the ribosome. Two bridges, eB...

journal_title：Nucleic acids research

authors： Kisly I,Remme J,Tamm T

更新日期：2019-01-10 00:00:00

abstract：:U1 snRNP plays a crucial role in the 5' splice site recognition during splicing. Here we report the first example of naturally occurring U1-independent U2-type splicing in humans. The U1 components were not included in the pre-spliceosomal E complex formed on the human F1gamma (hF1gamma) intron 9 in vitro. Moreover, h...

journal_title：Nucleic acids research

authors： Fukumura K,Taniguchi I,Sakamoto H,Ohno M,Inoue K

更新日期：2009-04-01 00:00:00

abstract：:ModBase (http://salilab.org/modbase) is a database of annotated comparative protein structure models. The models are calculated by ModPipe, an automated modeling pipeline that relies primarily on Modeller for fold assignment, sequence-structure alignment, model building and model assessment (http://salilab.org/modelle...

journal_title：Nucleic acids research

authors： Pieper U,Webb BM,Barkan DT,Schneidman-Duhovny D,Schlessinger A,Braberg H,Yang Z,Meng EC,Pettersen EF,Huang CC,Datta RS,Sampathkumar P,Madhusudhan MS,Sjölander K,Ferrin TE,Burley SK,Sali A

更新日期：2011-01-01 00:00:00

abstract：:Gene trapping is a method of generating murine embryonic stem (ES) cell lines containing insertional mutations in known and novel genes. A number of international groups have used this approach to create sizeable public cell line repositories available to the scientific community for the generation of mutant mouse str...

journal_title：Nucleic acids research

authors： Nord AS,Chang PJ,Conklin BR,Cox AV,Harper CA,Hicks GG,Huang CC,Johns SJ,Kawamoto M,Liu S,Meng EC,Morris JH,Rossant J,Ruiz P,Skarnes WC,Soriano P,Stanford WL,Stryke D,von Melchner H,Wurst W,Yamamura K,Young SG,

更新日期：2006-01-01 00:00:00

abstract：:The GenBank((R))sequence database incorporates publicly available DNA sequences of >55 000 different organisms, primarily through direct submission of sequence data from individual laboratories and large-scale sequencing projects. Most submissions are made using the BankIt (Web) or Sequin programs and accession number...

journal_title：Nucleic acids research

authors： Benson DA,Karsch-Mizrachi I,Lipman DJ,Ostell J,Rapp BA,Wheeler DL

更新日期：2000-01-01 00:00:00

abstract：:Next generation sequencing is widely used to link genetic variants to diseases, and it has massively accelerated the diagnosis and characterization of rare genetic diseases. After initial bioinformatic data processing, the interactive analysis of genome, exome, and panel sequencing data typically starts from lists of ...

journal_title：Nucleic acids research

authors： Müller H,Jimenez-Heredia R,Krolo A,Hirschmugl T,Dmytrus J,Boztug K,Bock C

更新日期：2017-07-03 00:00:00

abstract：:A small cloned DNA segment previously shown to contain all genetic information for the expression of the tRNA1met gene of Xenopus laevis was cleaved into an anterior and posterior portion by Hae III restriction. Both restriction fragments were cloned in pCR1 using EcoRI linkers. Starting from these tDNA subclones, a s...

journal_title：Nucleic acids research

authors： Kressmann A,Hofstetter H,Di Capua E,Grosschedl R,Birnstiel ML

更新日期：1979-12-11 00:00:00

abstract：:Here we describe a method of labelling short oligonucleotide probes with enzyme without purification or chemical modifications. Biotinylated oligonucleotides as short as 10 nt are coupled with streptavidin-conjugated enzyme, hybridised and detected with enzyme-triggered chemiluminescence. The detection of hybridisatio...

journal_title：Nucleic acids research

authors： Guerasimova A,Ivanov I,Lehrach H

更新日期：1999-01-15 00:00:00

abstract：:The Genomes Online Database (GOLD) (https://gold.jgi.doe.gov) is a manually curated data management system that catalogs sequencing projects with associated metadata from around the world. In the current version of GOLD (v.6), all projects are organized based on a four level classification system in the form of a Stud...

journal_title：Nucleic acids research

authors： Mukherjee S,Stamatis D,Bertsch J,Ovchinnikova G,Verezemska O,Isbandi M,Thomas AD,Ali R,Sharma K,Kyrpides NC,Reddy TB

更新日期：2017-01-04 00:00:00

abstract：:Alternative splicing is the primary source of proteome complexity in metazoans and its regulation shapes the proteome in response to shifting physiological requirements. We developed a bichromatic splicing reporter that uses a peculiar feature of some fluorescent protein coding regions to express two different fluores...

journal_title：Nucleic acids research

authors： Orengo JP,Bundman D,Cooper TA

更新日期：2006-01-01 00:00:00

abstract：:Herpes simplex type 1 virus (HSV-1) and bacteriophage λ capsids undergo considerable structural changes during self-assembly and DNA packaging. The initial steps of viral capsid self-assembly require weak, non-covalent interactions between the capsid subunits to ensure free energy minimization and error-free assembly....

journal_title：Nucleic acids research

authors： Sae-Ueng U,Liu T,Catalano CE,Huffman JB,Homa FL,Evilevitch A

更新日期：2014-08-01 00:00:00