MetaNetX/MNXref--reconciliation of metabolites and biochemical reactions to bring together genome-scale metabolic networks.

abstract：:Restriction mapping demonstrated the presence of several distinct proviral forms of mouse mammary tumor virus in the genome of GR mice. One of these proviruses (GR-MTV-2) was highly amplified in GR 3A cells, a cell line derived from a GR mammary tumor. By the criterion of restriction mapping, the amplified GR-MTV-2 pr...

journal_title：Nucleic acids research

authors： Fanning TG,Puma JP,Cardiff RD

更新日期：1980-12-11 00:00:00

abstract：:Polyadenylation is a co-transcriptional process that modifies mRNA 3'-ends in eukaryotes. In yeast, CF IA and CPF constitute the core 3'-end maturation complex. CF IA comprises Rna14p, Rna15p, Pcf11p and Clp1p. CF IA interacts with the C-terminal domain of RNA Pol II largest subunit via Pcf11p which links pre-mRNA 3'-...

journal_title：Nucleic acids research

authors： Haddad R,Maurice F,Viphakone N,Voisinet-Hakil F,Fribourg S,Minvielle-Sébastia L

更新日期：2012-02-01 00:00:00

abstract：:Two types of different repetitive DNA sequences called RepMP1 and RepMP2 were identified in the genome of Mycoplasma pneumoniae. The number of these repeated elements, their nucleotide sequence and their localization on a physical map of the M. pneumoniae genome were determined. The results show that RepMP1 appears at...

journal_title：Nucleic acids research

authors： Wenzel R,Herrmann R

更新日期：1988-09-12 00:00:00

abstract：:We have used photo-crosslinking to investigate the structure and dynamics of four-way junction hairpin ribozyme constructs. Four phenylazide photo-crosslinkers were coupled to 2'-NH2-modified U+2 in the substrate and irradiated at different Mg2+ concentrations and temperatures. Consistent with the role of divalent met...

journal_title：Nucleic acids research

authors： Borda EJ,Sigurdsson ST

更新日期：2005-02-18 00:00:00

abstract：:Mobile introns and inteins self-propagate by 'homing', a gene conversion process initiated by site-specific homing endonucleases. The VMA intein, which encodes the PI-SceI endonuclease in Saccharomyces cerevisiae, is present in several different yeast strains. Surprisingly, a wild wine yeast (DH1-1A) contains not only...

journal_title：Nucleic acids research

authors： Gimble FS

更新日期：2001-10-15 00:00:00

abstract：:Single-walled carbon nanotubes (SWNTs) have been considered as the leading candidate for nanodevice applications ranging from gene therapy and novel drug delivery to membrane separations. The miniaturization of DNA-nanotube devices for biological applications requires fully understanding DNA-nanotube interaction mecha...

journal_title：Nucleic acids research

authors： Li X,Peng Y,Qu X

更新日期：2006-08-02 00:00:00

abstract：:In addition to maintaining the GenBank 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 made available through NCBI's Web site. NCBI resources include Entrez, the Entrez Programming Utili...

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,Geer LY,Helmberg W,Kapustin Y,Kenton DL,Khovayko O,Lipman DJ,Madden TL,Maglott DR,Ostell J,Pruitt KD,Schuler G

更新日期：2006-01-01 00:00:00

abstract：:UHRF1 plays multiple roles in regulating DNMT1-mediated DNA methylation maintenance during DNA replication. The UHRF1 C-terminal RING finger functions as an ubiquitin E3 ligase to establish histone H3 ubiquitination at Lys18 and/or Lys23, which is subsequently recognized by DNMT1 to promote its localization onto repli...

journal_title：Nucleic acids research

authors： Li T,Wang L,Du Y,Xie S,Yang X,Lian F,Zhou Z,Qian C

更新日期：2018-04-06 00:00:00

abstract：:Enhancers are a class of cis-regulatory elements that can increase gene transcription by forming loops in intergenic regions, introns and exons. Enhancers, as well as their associated target genes, and transcription factors (TFs) that bind to them, are highly associated with human disease and biological processes. Alt...

journal_title：Nucleic acids research

authors： Bai X,Shi S,Ai B,Jiang Y,Liu Y,Han X,Xu M,Pan Q,Wang F,Wang Q,Zhang J,Li X,Feng C,Li Y,Wang Y,Song Y,Feng K,Li C

更新日期：2020-01-08 00:00:00

abstract：:DNA from healthy Malaysian newborns was studied on gene maps after digestion with different restriction endonucleases. Of 65 newborns, two were found to be carriers of two different variants of triplicated alpha-globin loci. In variant no. 1, found in an Malay, the three alpha-globin genes are in an elongated DNA frag...

journal_title：Nucleic acids research

authors： Lie-Injo LE,Herrera AR,Kan YW

更新日期：1981-08-11 00:00:00

abstract：:The potential use of alpha-beta-anomeric duplex oligonucleotides to inhibit transcription factor activity by the decoy approach is investigated in this report. Indeed, several alpha-beta-anomeric heteroduplexes display a sequence-specific interaction with the p50 subunit of the transcription factor NF kappa B. Used in...

journal_title：Nucleic acids research

authors： Tanaka H,Vickart P,Bertrand JR,Rayner B,Morvan F,Imbach JL,Paulin D,Malvy C

更新日期：1994-08-11 00:00:00

abstract：:Isopentenyl adenosine derivatives are always located adjacent to the 3' end of the anticodon in transfer RNA and have been implicated in certain biological functions. In the enteric bacterium, E. coli, the derivative is ms2i6A whereas in some plant associated bacteria the derivative is the hydroxylated form, ms2io6A. ...

journal_title：Nucleic acids research

authors： Janzer JJ,Raney JP,McLennan BD

更新日期：1982-09-25 00:00:00

abstract：:We previously determined that a linear co-polymer of histidine and lysine (HK) in combination with liposomes enhanced the transfection efficiency of cationic liposomes. In the current study, we designed a series of HK polymers with increased branching and/or histidine/lysine ratio to determine if either variable affec...

journal_title：Nucleic acids research

authors： Chen QR,Zhang L,Stass SA,Mixson AJ

更新日期：2001-03-15 00:00:00

abstract：:The proportion of cytosines methylated in the DNA of nucleosome oligomers and of core particles appears indistinguishable from that of total nuclear DNA from CHO cells. However the DNA in nucleoprotein which is initially released from nuclei by treatment with very low levels of micrococcal nuclease and the first 10% o...

journal_title：Nucleic acids research

authors： Adams RL,McKay EL,Douglas JT,Burdon RH

更新日期：1977-09-01 00:00:00

abstract：:The linking number of DNA in minichromosomes increases by 2 turns during SV40 assembly. Changes in temperature also influence the average linking number of the total intracellular forms of SV40 DNA. When the isolated minichromosomes assembled in vivo are incubated with topoisomerase I at 33 degrees C in vitro, the lin...

journal_title：Nucleic acids research

authors： Ambrose C,McLaughlin R,Bina M

更新日期：1987-05-11 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：:A library of three synthetic ribozymes with randomized arms, targeting NUX, GUX and NXG triplets, respectively, were used to identify ribozyme-accessible sites on the HIV-1 LTR transcript comprising positions -533 to 386. Three cleavable sites were identified at positions 109, 115 and 161. Ribozymes were designed agai...

journal_title：Nucleic acids research

authors： Bramlage B,Luzi E,Eckstein F

更新日期：2000-11-01 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：:The GWIPS-viz browser (http://gwips.ucc.ie/) is an on-line genome browser which is tailored for exploring ribosome profiling (Ribo-seq) data. Since its publication in 2014, GWIPS-viz provides Ribo-seq data for an additional 14 genomes bringing the current total to 23. The integration of new Ribo-seq data has been auto...

journal_title：Nucleic acids research

authors： Michel AM,Kiniry SJ,O'Connor PBF,Mullan JP,Baranov PV

更新日期：2018-01-04 00:00:00

abstract：:Repair of DNA double-strand breaks (DSBs) with homologous chromosomes is a hallmark of meiosis that is mediated by recombination 'bridges' between homolog axes. This process requires cooperation of DMC1 and RAD51 to promote homology search and strand exchange. The mechanism(s) regulating DMC1/RAD51-ssDNA nucleoprotein...

journal_title：Nucleic acids research

authors： Shang Y,Huang T,Liu H,Liu Y,Liang H,Yu X,Li M,Zhai B,Yang X,Wei Y,Wang G,Chen Z,Wang S,Zhang L

更新日期：2020-07-09 00:00:00

abstract：:We describe an improved model of DNA replication in Xenopus egg extracts, in which a circular plasmid immobilized on paramagnetic beads is used as a template. DNA synthesis occurred on either circular or linear plasmids coupled to the beads, but only DNA synthesis on the circular plasmid was inhibited by geminin and a...

journal_title：Nucleic acids research

authors： Zembutsu A,Waga S

更新日期：2006-07-26 00:00:00

abstract：:The leaf senescence database (LSD) is a comprehensive resource of senescence-associated genes (SAGs) and their corresponding mutants. Through manual curation and extensive annotation, we updated the LSD to a new version LSD 3.0, which contains 5853 genes and 617 mutants from 68 species. To provide sustainable and reli...

journal_title：Nucleic acids research

authors： Li Z,Zhang Y,Zou D,Zhao Y,Wang HL,Zhang Y,Xia X,Luo J,Guo H,Zhang Z

更新日期：2020-01-08 00:00:00

abstract：:High-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP, also called CLIP-Seq) has been used to map global RNA-protein interactions. However, a critical caveat of HITS-CLIP results is that they contain non-linear background noise-different extent of non-specific interactions caused b...

journal_title：Nucleic acids research

authors： Park S,Ahn SH,Cho ES,Cho YK,Jang ES,Chi SW

更新日期：2018-11-30 00:00:00

abstract：:The SeqA protein binds hemi-methylated GATC sites and forms structures that sequester newly replicated origins and trail the replication forks. Cells that lack SeqA display signs of replication fork disintegration. The broken forks could arise because of over-initiation (the launching of too many forks) or lack of dyn...

journal_title：Nucleic acids research

authors： Pedersen IB,Helgesen E,Flåtten I,Fossum-Raunehaug S,Skarstad K

更新日期：2017-06-20 00:00:00

abstract：:Using a genetic selection for suppressors of a UGA nonsense mutation in trpA, we have isolated a G to A transition mutation at position 1491 in the decoding region of 16S rRNA. This suppressor displayed no codon specificity, suppressing UGA, UAG and UAA nonsense mutations and +1 and -1 frameshift mutations in lacZ. Su...

journal_title：Nucleic acids research

authors： Gregory ST,Dahlberg AE

更新日期：1995-11-11 00:00:00

abstract：:Ribotoxins are potent inhibitors of protein biosynthesis and inactivate ribosomes from a variety of organisms. The ribotoxin alpha-sarcin cleaves the large 23S ribosomal RNA (rRNA) at the universally conserved sarcin-ricin loop (SRL) leading to complete inactivation of the ribosome and cellular death. The SRL interact...

journal_title：Nucleic acids research

authors： García-Ortega L,Alvarez-García E,Gavilanes JG,Martínez-del-Pozo A,Joseph S

更新日期：2010-07-01 00:00:00

abstract：:Proteomic and RNomic approaches have identified many components of different ribonucleoprotein particles (RNPs), yet still little is known about the organization and protein proximities within these heterogeneous and highly dynamic complexes. Here we describe a targeted cross-linking approach, which combines cross-lin...

journal_title：Nucleic acids research

authors： Trahan C,Oeffinger M

更新日期：2016-02-18 00:00:00

abstract：:Previous studies have established a critical role of both TFIIB and RNA polymerase II (RNAPII) in start site selection in the yeast Saccharomyces cerevisiae. However, it remains unclear how the TFIIB-RNAPII interaction impacts on this process since such an interaction can potentially influence both preinitiation compl...

journal_title：Nucleic acids research

authors： Zhang DY,Carson DJ,Ma J

更新日期：2002-07-15 00:00:00

abstract：:Loss-of-function in melanocortin 1 receptor (MC1R), a GS protein-coupled receptor that regulates signal transduction through cAMP and protein kinase A (PKA) in melanocytes, is a major inherited melanoma risk factor. Herein, we report a novel cAMP-mediated response for sensing and responding to UV-induced DNA damage re...

journal_title：Nucleic acids research

authors： Jarrett SG,Wolf Horrell EM,D'Orazio JA

更新日期：2016-12-15 00:00:00

abstract：:Gaussian network model (GNM) is a simple yet powerful model for investigating the dynamics of proteins and their complexes. GNM analysis became a broadly used method for assessing the conformational dynamics of biomolecular structures with the development of a user-friendly interface and database, iGNM, in 2005. We pr...

journal_title：Nucleic acids research

authors： Li H,Chang YY,Yang LW,Bahar I

更新日期：2016-01-04 00:00:00