Rapid, modular and reliable construction of complex mammalian gene circuits.

abstract：:The specific function of RNA molecules frequently resides in their seemingly unstructured loop regions. We performed a systematic analysis of RNA loops extracted from experimentally determined three-dimensional structures of RNA molecules. A comprehensive loop-structure data set was created and organized into distinct...

journal_title：Nucleic acids research

authors： Schudoma C,May P,Nikiforova V,Walther D

更新日期：2010-01-01 00:00:00

abstract：:The somatic V(D)J recombination for the assembly of the Ig and TCR genes is mediated by the recombination signal sequences (Rss) and the V(D)J recombinase. A cDNA clone was isolated from a lambda gt11 expression library made from mouse thymocyte poly(A)+ RNA, using the Rss as a ligand. The deduced amino acid sequence ...

journal_title：Nucleic acids research

authors： Wu LC,Mak CH,Dear N,Boehm T,Foroni L,Rabbitts TH

更新日期：1993-11-11 00:00:00

abstract：:The SPARC gene 5'flanking sequence has been shown to contain enhancer elements, but also negative control elements immediately upstream of the enhancer elements. Although these 5'enhancer elements are active in F9 and PYS-2 cells, their activities are nullified by the 5'repressor activity. In the present study we have...

journal_title：Nucleic acids research

authors： Satyamoorthy K,Samulewicz SJ,Thornburg LD,Basu A,Howe CC

更新日期：1997-08-01 00:00:00

abstract：:Post-transcriptional modifications are characteristic features of tRNAs and have been shown in a number of cases to influence both their structural and functional properties, including structure stabilization, amino-acylation and codon recognition. We have developed an approach which allows the investigation of the po...

journal_title：Nucleic acids research

authors： Helm M,Florentz C,Chomyn A,Attardi G

更新日期：1999-02-01 00:00:00

abstract：:Adaptation of the P1 phage-derived Cre /loxP site- specific recombination system to the gene targeting technique allows for the conditional deletion of genes in mice. To selectively modify genes in B lymphocytes, we have generated mice (designated CD19-Cre) which express cre under the transcriptional control of the B ...

journal_title：Nucleic acids research

authors： Rickert RC,Roes J,Rajewsky K

更新日期：1997-03-15 00:00:00

abstract：:The lambdagt clones containing fragments of the Drosophila melanogaster genome were prepared and characterized by hybridization of their DNA with (I) lambdagt-cRNA; (2) lambdaC-cRNA; (3) Dm-cRNA; (4) the mRNA of D.melanogaster culture cells and (5) the stable cytoplasmic poly (A) RNA from the same source. The techniqu...

journal_title：Nucleic acids research

authors： Ilyin YV,Tchurikov NA,Georgiev

更新日期：1976-08-01 00:00:00

abstract：:Pentatricopeptide repeat (PPR) proteins are helical-repeat proteins that offer a promising scaffold for the engineering of proteins to bind specified RNAs. PPR tracts bind RNA in a modular 1-repeat, 1-nucleotide fashion. An amino acid code specifying the bound nucleotide has been elucidated. However, this code does no...

journal_title：Nucleic acids research

authors： Miranda RG,McDermott JJ,Barkan A

更新日期：2018-03-16 00:00:00

abstract：:An improved method was developed for microdissection and cloning of metaphase as well as pachytene chromosomes. The protocol incorporates efficient ligation of chromosomal DNA with linker adaptors, abolishment of microcloning steps and the reduction of micromanipulation. The threshold for amplifying genomic DNA templa...

journal_title：Nucleic acids research

authors： Ponelies N,Stein N,Weber G

更新日期：1997-09-01 00:00:00

abstract：:Although the promoters of both the Bax and p21 genes are activated by p53, they differ in the effect on this activation of the POU family transcription factor Brn-3a. Thus, Brn-3a inhibits activation of the Bax promoter by p53 but enhances the ability of p53 to activate the p21 promoter. We demonstrate that repression...

journal_title：Nucleic acids research

authors： Perez-Sanchez C,Budhram-Mahadeo VS,Latchman DS

更新日期：2002-11-15 00:00:00

abstract：:With the abundant mammalian lncRNAs identified recently, a comprehensive annotation resource for these novel lncRNAs is an urgent need. Since its first release in November 2016, AnnoLnc has been the only online server for comprehensively annotating novel human lncRNAs on-the-fly. Here, with significant updates to mult...

journal_title：Nucleic acids research

authors： Ke L,Yang DC,Wang Y,Ding Y,Gao G

更新日期：2020-07-02 00:00:00

abstract：:Since 2010, the Genomicus web server is available online at http://genomicus.biologie.ens.fr/genomicus. This graphical browser provides access to comparative genomic analyses in four different phyla (Vertebrate, Plants, Fungi, and non vertebrate Metazoans). Users can analyse genomic information from extant species, as...

journal_title：Nucleic acids research

authors： Nguyen NTT,Vincens P,Roest Crollius H,Louis A

更新日期：2018-01-04 00:00:00

abstract：:A cell-free extract of yeast nuclei that can specifically transcribe cloned yeast 5S rRNA genes has been developed. Optima for transcription of 5S rDNA were determined and conditions of extract preparation leading to reproducible activities and specificities established. The major in vitro product has the same size an...

journal_title：Nucleic acids research

authors： van Keulen H,Thomas DY

更新日期：1982-09-11 00:00:00

abstract：:HbVar (http://globin.bx.psu.edu/hbvar) is one of the oldest and most appreciated locus-specific databases launched in 2001 by a multi-center academic effort to provide timely information on the genomic alterations leading to hemoglobin variants and all types of thalassemia and hemoglobinopathies. Database records incl...

journal_title：Nucleic acids research

authors： Giardine B,Borg J,Viennas E,Pavlidis C,Moradkhani K,Joly P,Bartsakoulia M,Riemer C,Miller W,Tzimas G,Wajcman H,Hardison RC,Patrinos GP

更新日期：2014-01-01 00:00:00

abstract：:The Gene Context Tool (GeConT) allows users to visualize the genomic context of a gene or a group of genes and their orthologous relationships within fully sequenced bacterial genomes. The new version of the server incorporates information from the COG, Pfam and KEGG databases, allowing users to have an integrated gra...

journal_title：Nucleic acids research

authors： Martinez-Guerrero CE,Ciria R,Abreu-Goodger C,Moreno-Hagelsieb G,Merino E

更新日期：2008-07-01 00:00:00

abstract：:RNase J is a conserved ribonuclease that belongs to the β-CASP family of nucleases. It possesses both endo- and exo-ribonuclease activities, which play a key role in pre-rRNA maturation and mRNA decay. Here we report high-resolution crystal structures of Deinococcus radiodurans RNase J complexed with RNA or uridine 5'...

journal_title：Nucleic acids research

authors： Zhao Y,Lu M,Zhang H,Hu J,Zhou C,Xu Q,Ul Hussain Shah AM,Xu H,Wang L,Hua Y

更新日期：2015-06-23 00:00:00

abstract：:DNA mismatches are highly polymorphic and dynamic in nature, albeit poorly characterized structurally. We utilized the antitumour antibiotic CoII(Chro)2 (Chro = chromomycin A3) to stabilize the palindromic duplex d(TTGGCGAA) DNA with two G:G mismatches, allowing X-ray crystallography-based monitoring of mismatch polym...

journal_title：Nucleic acids research

authors： Satange R,Chuang CY,Neidle S,Hou MH

更新日期：2019-09-19 00:00:00

abstract：:The oncoprotein c-Myc plays an important role in cell proliferation, transformation, inhibition of differentiation and apoptosis. These functions most likely result from the transcription factor activity of c-Myc. As a heterodimer with Max, the c-Myc protein binds to the E-box sequence (CACGTG), which is also recogniz...

journal_title：Nucleic acids research

authors： Walhout AJ,Gubbels JM,Bernards R,van der Vliet PC,Timmers HT

更新日期：1997-04-15 00:00:00

abstract：:The budding yeast Saccharomyces cerevisiae is proving to be an useful and accurate model for eukaryotic DNA replication. It contains both DNA polymerase alpha (I) and delta (III). Recently, proliferating cell nuclear antigen (PCNA), which in mammalian cells is an auxiliary subunit of DNA polymerase delta and is essent...

journal_title：Nucleic acids research

authors： Bauer GA,Burgers PM

更新日期：1990-01-25 00:00:00

abstract：:Benzo[c]phenanthrene dihydrodiol epoxide (B[c] PhDE) is well known as an important environmental chemical carcinogen that preferentially modifies DNA in adenine residues. However, the molecular mechanism by which B[c]PhDE induces tumorigenesis is not fully understood. In this report, we demonstrate that DNA mismatch r...

journal_title：Nucleic acids research

authors： Wu J,Zhu BB,Yu J,Zhu H,Qiu L,Kindy MS,Gu L,Seidel A,Li GM

更新日期：2003-11-15 00:00:00

abstract：:Instability of complex mammalian genomic DNA inserts is commonplace in cosmid libraries constructed in conventional multicopy vectors. To develop a means to construct stable libraries, we have developed a low copy number cosmid vector based on the E. coli F factor replicon (Fosmid). We have tested relative stability o...

journal_title：Nucleic acids research

authors： Kim UJ,Shizuya H,de Jong PJ,Birren B,Simon MI

更新日期：1992-03-11 00:00:00

abstract：:Residual dipolar coupling (RDC) represents one of the most exciting emerging NMR techniques for protein structure studies. However, solving a protein structure using RDC data alone is still a highly challenging problem. We report here a computer program, RDC-PROSPECT, for protein structure prediction based on a struct...

journal_title：Nucleic acids research

authors： Qu Y,Guo JT,Olman V,Xu Y

更新日期：2004-01-26 00:00:00

abstract：:Transcriptomics (at the level of single cells, tissues and/or whole organisms) underpins many fields of biomedical science, from understanding the basic cellular function in model organisms, to the elucidation of the biological events that govern the development and progression of human diseases, and the exploration o...

journal_title：Nucleic acids research

authors： Cantacessi C,Jex AR,Hall RS,Young ND,Campbell BE,Joachim A,Nolan MJ,Abubucker S,Sternberg PW,Ranganathan S,Mitreva M,Gasser RB

更新日期：2010-09-01 00:00:00

abstract：:We have used heteroduplex analysis to investigate the sequences surrounding the germline C gamma 1 and C gamma 3 genes, and to compare them with those surrounding the C mu gene. We detected an inverted pseudogene 5' to the C gamma 3 gene and 50-65% homologous to it. A 400 bp region of the C gamma 1 and C gamma 3 3' fl...

journal_title：Nucleic acids research

authors： Tyler BM,Adams JM

更新日期：1980-12-11 00:00:00

abstract：:Analysis of haplotypes is an important tool in population genetics, familial heredity and gene mapping. Determination of haplotypes of multiple single nucleotide polymorphisms (SNPs) or other simple mutations is time consuming and expensive when analyzing large populations, and often requires the help of computational...

journal_title：Nucleic acids research

authors： Eitan Y,Kashi Y

更新日期：2002-06-15 00:00:00

abstract：:Currently transgenic frog embryos are generated using restriction-enzyme-mediated integration (REMI) on decondensed sperm nuclei followed by nuclear transplantation into unfertilized eggs. We have developed a simplified version of this protocol that has the potential to increase the numbers of normally developing tran...

journal_title：Nucleic acids research

authors： Sparrow DB,Latinkic B,Mohun TJ

更新日期：2000-02-15 00:00:00

abstract：:A phage-display library of random peptides is a combinatorial experimental technique that can be harnessed for studying antibody-antigen interactions. In this technique, a phage peptide library is scanned against an antibody molecule to obtain a set of peptides that are bound by the antibody with high affinity. This s...

journal_title：Nucleic acids research

authors： Mayrose I,Shlomi T,Rubinstein ND,Gershoni JM,Ruppin E,Sharan R,Pupko T

更新日期：2007-01-01 00:00:00

abstract：:The replication origin region of the Escherichia coli K-12 chromosome has been cloned, and a region of 245 base-pairs has been shown to contain all the information for autonomous replication (defined ori). In order to obtain further information on the sequence organization in the defined ori stretch, various types of ...

journal_title：Nucleic acids research

authors： Asada K,Sugimoto K,Oka A,Takanami M,Hirota Y

更新日期：1982-06-25 00:00:00

abstract：:Helicobacter pylori is a Gram-negative bacterium that colonizes human stomach and causes gastric inflammation. The species is naturally competent and displays remarkable diversity. The presence of a large number of restriction-modification (R-M) systems in this bacterium creates a barrier against natural transformatio...

journal_title：Nucleic acids research

authors： Dwivedi GR,Sharma E,Rao DN

更新日期：2013-03-01 00:00:00

abstract：:We report here the different ways in which four subunits of the basal transcription/repair factor TFIIH (XPB, XPD, p62 and p44) and the damage recognition XPC repair protein can enter the nucleus. We examined their nuclear localization by transiently expressing the gene products tagged with the enhanced green fluoresc...

journal_title：Nucleic acids research

authors： Santagati F,Botta E,Stefanini M,Pedrini AM

更新日期：2001-04-01 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