Compilation of DNA sequences of Escherichia coli (update 1993).

abstract：:The sequence of the 356 nucleotide residues of chrysanthemum stunt viroid (CSV) has been determined. Overlapping linear viroid fragments were obtained by partial ribonuclease digestion, radiolabelled in vitro at their 5'-ends, and sequenced using partial enzymic cleavage methods. Of the CSV sequence, 69% is contained ...

journal_title：Nucleic acids research

authors： Haseloff J,Symons RH

更新日期：1981-06-25 00:00:00

abstract：:Exon arrays are regularly used to analyze differential splicing events. GeneChip Gene 1.0 ST Arrays (gene arrays) manufactured by Affymetrix, Inc. are primarily used to determine expression levels of transcripts, although their basic design is rather similar to GeneChip Exon 1.0 ST Arrays (exon arrays). Here, we show ...

journal_title：Nucleic acids research

authors： Gellert P,Teranishi M,Jenniches K,De Gaspari P,John D,Kreymborg Kg,Braun T,Uchida S

更新日期：2012-03-01 00:00:00

abstract：:Small RNA (sRNA)-mediated gene silencing phenomena, exemplified by RNA interference (RNAi), require a unique class of proteins called Argonautes (AGOs). An AGO protein typically forms a protein-sRNA complex that contributes to gene silencing using the loaded sRNA as a specificity determinant. Here, we show that MoAGO2...

journal_title：Nucleic acids research

authors： Nguyen Q,Iritani A,Ohkita S,Vu BV,Yokoya K,Matsubara A,Ikeda KI,Suzuki N,Nakayashiki H

更新日期：2018-03-16 00:00:00

abstract：:Many complex viruses package their genomes into empty protein shells and bacteriophages of the Cystoviridae family provide some of the simplest models for this. The cystoviral hexameric NTPase, P4, uses chemical energy to translocate single-stranded RNA genomic precursors into the procapsid. We previously dissected th...

journal_title：Nucleic acids research

authors： El Omari K,Meier C,Kainov D,Sutton G,Grimes JM,Poranen MM,Bamford DH,Tuma R,Stuart DI,Mancini EJ

更新日期：2013-11-01 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：:DNA topoisomerases and DNA site-specific recombinases are biologically important enzymes involved in a diverse set of cellular processes. We show that replacement of a phosphodiester linkage by a 5'-bridging phosphorothioate linkage creates an efficient suicide substrate for calf thymus topoisomerase I and lambda inte...

journal_title：Nucleic acids research

authors： Burgin AB Jr,Huizenga BN,Nash HA

更新日期：1995-08-11 00:00:00

abstract：:Details of polynucleotide flexibility may be probed through a combination of semiempirical potential energy calculations and statistical mechanical analyses. The pseudorotational motions of the furanose and the long-range correlated rotations of the chain backbone are described briefly here. ...

journal_title：Nucleic acids research

authors： Olson WK

更新日期：1982-02-11 00:00:00

abstract：:MLL, the trithorax ortholog, is a well-characterized histone 3 lysine 4 methyltransferase that is crucial for proper regulation of the Hox genes during embryonic development. Chromosomal translocations, disrupting the Mll gene, lead to aggressive leukemia with poor prognosis. However, the functions of MLL in cellular ...

journal_title：Nucleic acids research

authors： Ali A,Veeranki SN,Tyagi S

更新日期：2014-07-01 00:00:00

abstract：:We had shown previously (3) that the E. coli argE gene could be turned-on by an IS3 element inserted in orientation II near the 5' end of the gene. Here we show that this effect is due to the presence of an outward promoter located on IS3. The exact site of insertion of IS3 was determined by DNA sequencing. Using the ...

journal_title：Nucleic acids research

authors： Charlier D,Piette J,Glansdorff N

更新日期：1982-10-11 00:00:00

abstract：:A set of programs was developed for searching nucleic acid and protein sequence data bases for sequences similar to a given sequence. The programs, written in FORTRAN 77, were optimized for vector processing on a Hitachi S810-20 supercomputer. A search of a 500-residue protein sequence against the entire PIR data base...

journal_title：Nucleic acids research

authors： Gotoh O,Tagashira Y

更新日期：1986-01-10 00:00:00

abstract：:Pseudogenes are copies of genes that cannot produce a protein. They can be detected from disruptions to their apparent coding sequence, caused by frameshifts and premature stop codons. They are classed as either processed pseudogenes (made by reverse transcription from an mRNA) or duplicated pseudogenes, arising from ...

journal_title：Nucleic acids research

authors： Harrison PM,Milburn D,Zhang Z,Bertone P,Gerstein M

更新日期：2003-02-01 00:00:00

abstract：:We describe a dedicated RNA motif search program and web server to identify RNA riboswitches. The Riboswitch finder analyses a given sequence using the web interface, checks specific sequence elements and secondary structure, calculates and displays the energy folding of the RNA structure and runs a number of tests in...

journal_title：Nucleic acids research

authors： Bengert P,Dandekar T

更新日期：2004-07-01 00:00:00

abstract：:With the increasing number of protein structures available, there is a need for tools capable of automating the comparison of ensembles of structures, a common requirement in structural biology and bioinformatics. PSSweb is a web server for protein structural statistics. It takes as input an ensemble of PDB files of p...

journal_title：Nucleic acids research

authors： Gaillard T,Stote RH,Dejaegere A

更新日期：2016-07-08 00:00:00

abstract：:Extragenic sequences in genomes, such as microRNA and CRISPR, are vital players in the cell. Repetitive extragenic palindromic sequences (REPs) are a class of extragenic sequences, which form nucleotide stem-loop structures. REPs are found in many bacterial species at a high copy number and are important in regulation...

journal_title：Nucleic acids research

authors： Messing SA,Ton-Hoang B,Hickman AB,McCubbin AJ,Peaslee GF,Ghirlando R,Chandler M,Dyda F

更新日期：2012-10-01 00:00:00

abstract：:In a pilot study on SAGE on Reed-Sternberg cells we have sequenced 1055 tags representing 701 genes. Screening of the GenBank database resulted in the identification of a corresponding gene or EST for 490 of them. For 211 of the tags no homology could be detected. A major problem of the serial analysis of gene express...

journal_title：Nucleic acids research

authors： van den Berg A,van der Leij J,Poppema S

更新日期：1999-09-01 00:00:00

abstract：:Galahad (https://galahad.esat.kuleuven.be) is a web-based application for analysis of drug effects. It provides an intuitive interface to be used by anybody interested in leveraging microarray data to gain insights into the pharmacological effects of a drug, mainly identification of candidate targets, elucidation of m...

journal_title：Nucleic acids research

authors： Laenen G,Ardeshirdavani A,Moreau Y,Thorrez L

更新日期：2015-07-01 00:00:00

abstract：:In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides analysis and retrieval resources for the data in GenBank and other biological data available through NCBI's web site. NCBI resources include Entrez, the Entrez Programming Utiliti...

journal_title：Nucleic acids research

authors： Wheeler DL,Barrett T,Benson DA,Bryant SH,Canese K,Chetvernin V,Church DM,Dicuccio M,Edgar R,Federhen S,Feolo M,Geer LY,Helmberg W,Kapustin Y,Khovayko O,Landsman D,Lipman DJ,Madden TL,Maglott DR,Miller V,Ostell J,

更新日期：2008-01-01 00:00:00

abstract：:TAP/hNXF1 is a key factor that mediates general cellular mRNA export from the nucleus, and its orthologs are structurally and functionally conserved from yeast to humans. Metazoans encode additional proteins that share homology and domain organization with TAP/hNXF1, suggesting their participation in mRNA metabolism; ...

journal_title：Nucleic acids research

authors： Tan W,Zolotukhin AS,Tretyakova I,Bear J,Lindtner S,Smulevitch SV,Felber BK

更新日期：2005-07-13 00:00:00

abstract：:Positive control of the wild-type Klebsiella pneumoniae nifH promoter by the NifA protein requires that NifA is bound at the upstream activator sequence (UAS). By introducing base substitutions at -15 to -17 in the RNA polymerase recognition sequence of the nifH promoter, positive control by a form of NifA unable to b...

journal_title：Nucleic acids research

authors： Buck M,Cannon W

更新日期：1989-04-11 00:00:00

abstract：:The three-dimensional structures of two DNA duplexes d(CATGAGTAC). d(GTACXCATG) (1) and d(CATGAGTAC).d(GTACTCATG) (2), where X represents 1-(2'-deoxy-beta-D-ribofuranosyl)-3-nitropyrrole, were solved using high resolution nuclear magnetic resonance spectroscopy and restrained molecular dynamics. Good convergence was o...

journal_title：Nucleic acids research

authors： Klewer DA,Hoskins A,Zhang P,Davisson VJ,Bergstrom DE,LiWang AC

更新日期：2000-11-15 00:00:00

abstract：:Within a single infected individual, a virus population can have a high genomic variability. In the case of HIV, several mutations can be present even in a small genomic window of 20-30 nucleotides. For diagnostics purposes, it is often needed to resequence genomic subsets where crucial mutations are known to occur. I...

journal_title：Nucleic acids research

authors： Hadiwikarta WW,Van Dorst B,Hollanders K,Stuyver L,Carlon E,Hooyberghs J

更新日期：2013-10-01 00:00:00

abstract：:In Saccharomyces cerevisiae, the stability of highly repetitive rDNA array is maintained through transcriptional silencing. Recently, a β-1,3-glucanosyltransferase Gas1 has been shown to play a significant role in the regulation of transcriptional silencing in S. cerevisiae. Here, we show that the gas1Δ mutation incre...

journal_title：Nucleic acids research

authors： Ha CW,Kim K,Chang YJ,Kim B,Huh WK

更新日期：2014-07-01 00:00:00

abstract：:While most of the recent improvements in multiple sequence alignment accuracy are due to better use of vertical information, which include the incorporation of consistency-based pairwise alignments and the use of profile alignments, we observe that it is possible to further improve accuracy by taking into account alig...

journal_title：Nucleic acids research

authors： Lu Y,Sze SH

更新日期：2009-02-01 00:00:00

abstract：:Here we describe a two-stepped photobiotin-based procedure to enrich a target (canine retinal) cDNA library for tissue specific clones without removing those containing repetitive ( SINE ) elements, despite the presence of these elements in the driver population. In a first hybridization excess SINE elements were hybr...

journal_title：Nucleic acids research

authors： Lin CT,Sargan DR

更新日期：1997-11-01 00:00:00

abstract：:To date, an effective therapeutic treatment that confers strong attenuation toward coronaviruses (CoVs) remains elusive. Of all the potential drug targets, the helicase of CoVs is considered to be one of the most important. Here, we first present the structure of the full-length Nsp13 helicase of SARS-CoV (SARS-Nsp13)...

journal_title：Nucleic acids research

authors： Jia Z,Yan L,Ren Z,Wu L,Wang J,Guo J,Zheng L,Ming Z,Zhang L,Lou Z,Rao Z

更新日期：2019-07-09 00:00:00

abstract：:Metnase is a human protein with methylase (SET) and nuclease domains that is widely expressed, especially in proliferating tissues. Metnase promotes non-homologous end-joining (NHEJ), and knockdown causes mild hypersensitivity to ionizing radiation. Metnase also promotes plasmid and viral DNA integration, and topoisom...

journal_title：Nucleic acids research

authors： De Haro LP,Wray J,Williamson EA,Durant ST,Corwin L,Gentry AC,Osheroff N,Lee SH,Hromas R,Nickoloff JA

更新日期：2010-09-01 00:00:00

abstract：:The TPA-inducible transcription factor AP-1, consisting of homo- or hetero-dimers of members of the Jun- and Fos-families, regulates transcription of a wide variety of genes containing the TPA response element (TRE). In P19 embryonal carcinoma (EC) cells, Jun D is the only component of AP-1 expressed, while in these c...

journal_title：Nucleic acids research

authors： den Hertog J,de Groot RP,de Laat SW,Kruijer W

更新日期：1992-01-11 00:00:00

abstract：:Interferons (IFN) play a pivotal role in innate immunity, orchestrating a cell-intrinsic anti-pathogenic state and stimulating adaptive immune responses. The complex interplay between the primary response to IFNs and its modulation by positive and negative feedback loops is incompletely understood. Here, we implement ...

journal_title：Nucleic acids research

authors： Trilling M,Bellora N,Rutkowski AJ,de Graaf M,Dickinson P,Robertson K,Prazeres da Costa O,Ghazal P,Friedel CC,Albà MM,Dölken L

更新日期：2013-09-01 00:00:00

abstract：:Escherichia coli DNA polymerase III holoenzyme is composed of 10 different subunits linked by noncovalent interactions. The polymerase activity resides in the alpha-subunit. The epsilon-subunit, which contains the proofreading exonuclease site within its N-terminal 185 residues, binds to alpha via a segment of 57 addi...

journal_title：Nucleic acids research

authors： Ozawa K,Jergic S,Park AY,Dixon NE,Otting G

更新日期：2008-09-01 00:00:00

abstract：:In this paper we report the characterization of a newly sequenced 5' upstream region of the human HLA-DRA gene. We performed (i) search for transcription factor motifs, (ii) analysis of CpG display and observed/expected frequency ratios, (iii) search for regions homologous to the 5' upstream sequences of the murine EA...

journal_title：Nucleic acids research

authors： Feriotto G,Mischiati C,Bianchi N,Rutigliano C,Giacomini P,Gambari R

更新日期：1995-05-25 00:00:00