TropGeneDB, the multi-tropical crop information system updated and extended.

abstract：:To investigate the mechanism of N4-aminocytidine-induced mutagenesis, N'-alkyl-N4-aminocytidines and N4-alkyl-N4-aminocytidines were prepared and their mutagenicity on bacteria were assayed. N'-Methyl-N4-aminocytidine, N'-(2-hydroxyethyl)-N4-aminocytidine and N',N'-dimethyl-N4-aminocytidine showed direct-acting mutage...

journal_title：Nucleic acids research

authors： Nomura A,Negishi K,Hayatsu H

更新日期：1985-12-20 00:00:00

abstract：:With the improved rapid sequencing techniques, the earlier sequence of U2 RNA of Novikoff hepatoma (Shibata et al, J. Biol. Chem. 250, 3909-3920, 1975) was reanalyzed and modified. The improved sequence of U2 RNA is 188 (or 189) nucleotides long and is in register with a characterized U2 RNA pseudogene (Denison et al,...

journal_title：Nucleic acids research

authors： Reddy R,Henning D,Epstein P,Busch H

更新日期：1981-11-11 00:00:00

abstract：:Resonances of the water exchangeable iminoprotons of the acceptor and D stem of yeast tRNAPhe have been assigned by means of Nuclear Overhauser Effects (NOE's). Assignments were made for spectra recorded from tRNA dialysed against a buffer with 110 mM sodium and 5 mM magnesium ions and against a buffer with 430 mM sod...

journal_title：Nucleic acids research

authors： Heerschap A,Haasnoot CA,Hilbers CW

更新日期：1982-11-11 00:00:00

abstract：:Yeast uses nucleotide excision repair (NER) and photolyase (photoreactivation) to repair cyclobutane pyrimidine dimers (CPDs) generated by ultraviolet light. In active genes, NER preferentially repairs the transcribed strand (TS). In contrast, we recently showed that photolyase preferentially repairs the non-transcrib...

journal_title：Nucleic acids research

authors： Livingstone-Zatchej M,Meier A,Suter B,Thoma F

更新日期：1997-10-01 00:00:00

abstract：:No analogous nucleoside triphosphate was found which acts as well as ATP in binding to and supporting catalysis of leucyl-tRNA synthetase from Escherichia coli MRE 600. However, there are numerous nucleotides which are able to replace ATP, but with lower efficiency. The 6-amino group of the adenine ring and the 2'-hyd...

journal_title：Nucleic acids research

authors： Marutzky R,Flossdorf J,Kula MR

更新日期：1976-08-01 00:00:00

abstract：:The reactions between purified anti-poly A. poly U and-poly I. poly C. antibodies (IgG and IgM), and synthetic and natural polynucleotides were visualized at the molecular level. This was achieved by the use of fine tungsten bidirectional shadowing of molecules adsorbed onto thin carbon films, combined with dark field...

journal_title：Nucleic acids research

authors： Nahon-Merlin E,Delain E,Coulaud D,Lacour F

更新日期：1980-04-25 00:00:00

abstract：UNLABELLED:The PubMed® database of biomedical citations allows the retrieval of scientific articles studying the function of chemicals in biology and medicine. Mining millions of available citations to search reported associations between chemicals and topics of interest would require substantial human time. We have im...

journal_title：Nucleic acids research

authors： Gijón-Correas JA,Andrade-Navarro MA,Fontaine JF

更新日期：2014-07-01 00:00:00

abstract：:Extensive research has characterized distinct exogenous RNAi pathways interfering in gene expression during vegetative growth of the unicellular model ciliate Paramecium. However, role of RNAi in endogenous transcriptome regulation, and environmental adaptation is unknown. Here, we describe the first genome-wide profi...

journal_title：Nucleic acids research

authors： Karunanithi S,Oruganti V,Marker S,Rodriguez-Viana AM,Drews F,Pirritano M,Nordström K,Simon M,Schulz MH

更新日期：2019-09-05 00:00:00

abstract：:As an approach to define the structural features within the 5' noncoding region of Yellow Fever virus (YFV) that modulate mRNA translational efficiency, we have studied how minor changes in this region affect the translational capacity in vitro of the corresponding mRNAs. A cDNA sequence coding for part of the YFV str...

journal_title：Nucleic acids research

authors： Ruiz-Linares A,Bouloy M,Girard M,Cahour A

更新日期：1989-04-11 00:00:00

abstract：:The response to amino acid (AA) limitation of the entire aminoacyl-tRNA synthetase (ARS) gene family revealed that 16/20 of the genes encoding cytoplasmic-localized enzymes are transcriptionally induced by activating transcription factor 4 (Atf4) via C/ebp-Atf-Response-Element (CARE) enhancers. In contrast, only 4/19 ...

journal_title：Nucleic acids research

authors： Shan J,Zhang F,Sharkey J,Tang TA,Örd T,Kilberg MS

更新日期：2016-11-16 00:00:00

abstract：:In fission yeast and other eukaryotes, Rec12 (Spo11) is thought to catalyze the formation of dsDNA breaks (DSBs) that initiate homologous recombination in meiosis. Rec12 is orthologous to the catalytic subunit of topoisomerase VI (Top6A). Guided by the crystal structure of Top6A, we engineered the rec12 locus to encod...

journal_title：Nucleic acids research

authors： Kan F,Davidson MK,Wahls WP

更新日期：2011-03-01 00:00:00

abstract：:Tcf/Lef family transcription factors are the downstream effectors of the Wingless/Wnt signal transduction pathway. Upon Wingless/Wnt signalling, beta-catenin translocates to the nucleus, interacts with Tcf (1-3) and thus activates transcription of target genes (4,5). Tcf factors also interact with members of the Grouc...

journal_title：Nucleic acids research

authors： Brantjes H,Roose J,van De Wetering M,Clevers H

更新日期：2001-04-01 00:00:00

abstract：:Argonaute (AGO) proteins have a well-established role in post-transcriptional regulation of gene expression as key component of the RNA silencing pathways. Recent evidence involves AGO proteins in mammalian nuclear processes such as transcription and splicing, though the mechanistic aspects of AGO nuclear functions re...

journal_title：Nucleic acids research

authors： Carissimi C,Laudadio I,Cipolletta E,Gioiosa S,Mihailovich M,Bonaldi T,Macino G,Fulci V

更新日期：2015-02-18 00:00:00

abstract：:Hepatitis B virus (HBV) replication is initiated by HBV RT binding to the highly conserved encapsidation signal, epsilon, at the 5' end of the RNA pregenome. Epsilon contains an apical stem-loop, whose residues are either totally conserved or show rare non-disruptive mutations. Here we present the structure of the api...

journal_title：Nucleic acids research

authors： Flodell S,Petersen M,Girard F,Zdunek J,Kidd-Ljunggren K,Schleucher J,Wijmenga S

更新日期：2006-01-01 00:00:00

abstract：:Tandem repeats in DNA have been under intensive study for many years, first, as a consequence of their usefulness as genomic markers and DNA fingerprints and more recently as their role in human disease and regulatory processes has become apparent. The Tandem Repeats Database (TRDB) is a public repository of informati...

journal_title：Nucleic acids research

authors： Gelfand Y,Rodriguez A,Benson G

更新日期：2007-01-01 00:00:00

abstract：:Small interfering RNAs (siRNAs) are promising new active compounds in gene medicine but the induction of non-specific immune responses following their delivery continues to be a serious problem. With the purpose of avoiding such effects chemically modified siRNAs are tested in screening assay but often only examining ...

journal_title：Nucleic acids research

authors： Schyth BD,Bramsen JB,Pakula MM,Larashati S,Kjems J,Wengel J,Lorenzen N

更新日期：2012-05-01 00:00:00

abstract：:Applications of conditional gene expression, whether for therapeutic or basic research purposes, are increasingly requiring mammalian gene control systems that exhibit far tighter control properties. While numerous approaches have been used to improve the widely used Tet-regulatory system, many applications, particula...

journal_title：Nucleic acids research

authors： Greber D,El-Baba MD,Fussenegger M

更新日期：2008-09-01 00:00:00

abstract：:We report here the construction of engineered endonuclease database (EENdb) (http://eendb.zfgenetics.org/), a searchable database and knowledge base for customizable engineered endonucleases (EENs), including zinc finger nucleases (ZFNs) and transcription activator-like effector nucleases (TALENs). EENs are artificial...

journal_title：Nucleic acids research

authors： Xiao A,Wu Y,Yang Z,Hu Y,Wang W,Zhang Y,Kong L,Gao G,Zhu Z,Lin S,Zhang B

更新日期：2013-01-01 00:00:00

abstract：:Approximately half of all human transcripts contain at least one upstream translational initiation site that precedes the main coding sequence (CDS) and gives rise to an upstream open reading frame (uORF). We generated uORFdb, publicly available at http://cbdm.mdc-berlin.de/tools/uorfdb, to serve as a comprehensive li...

journal_title：Nucleic acids research

authors： Wethmar K,Barbosa-Silva A,Andrade-Navarro MA,Leutz A

更新日期：2014-01-01 00:00:00

abstract：:Many types of DNA structures are generated in response to DNA damage, repair and recombination that require processing via specialized nucleases. DNA hairpins represent one such class of structures formed during V(D)J recombination, palindrome extrusion, DNA transposition and some types of double-strand breaks. Here w...

journal_title：Nucleic acids research

authors： Tiefenbach T,Junop M

更新日期：2012-03-01 00:00:00

abstract：:In the process of establishing more and more complete annotations of eukaryotic genomes, a constantly growing number of alternative splicing (AS) events has been reported over the last decade. Consequently, the increasing transcript coverage also revealed the real complexity of some variations in the exon-intron struc...

journal_title：Nucleic acids research

authors： Foissac S,Sammeth M

更新日期：2007-07-01 00:00:00

abstract：:The last 82 nucleotides of the 6.3 kb genomic RNA of plant turnip yellow mosaic virus (TYMV), the so-called 'tRNA-like' domain, presents functional, structural and primary sequence homologies with canonical tRNAs. In particular, one of the stem-loops resembles the TPsi(pseudouridine)-branch of tRNA, except for the pre...

journal_title：Nucleic acids research

authors： Becker HF,Motorin Y,Florentz C,Giegé R,Grosjean H

更新日期：1998-09-01 00:00:00

abstract：:Cyclic AMP response element binding protein (CREB) activates transcription of cAMP response element (CRE)-containing promoters following an elevation of intracellular cAMP. Here we show that CREB and the highly related protein ATF-1 are also potent transcription inhibitors. Strikingly, CREB inhibits transcription of m...

journal_title：Nucleic acids research

authors： Lemaigre FP,Ace CI,Green MR

更新日期：1993-06-25 00:00:00

abstract：:Comparative analysis of mutants using transfection is complicated by clones exhibiting variable levels of gene expression due to copy number differences and genomic position effects. Recombinase-mediated cassette exchange (RMCE) can overcome these problems by introducing the target gene into pre-determined chromosomal...

journal_title：Nucleic acids research

authors： Wong ET,Kolman JL,Li YC,Mesner LD,Hillen W,Berens C,Wahl GM

更新日期：2005-10-04 00:00:00

abstract：:Microarrays are invaluable high-throughput tools used to snapshot the gene expression profiles of cells and tissues. Among the most basic and fundamental questions asked of microarray data is whether individual genes are significantly activated or repressed by a particular stimulus. We have previously presented two Ba...

journal_title：Nucleic acids research

authors： Hsiao A,Ideker T,Olefsky JM,Subramaniam S

更新日期：2005-07-01 00:00:00

abstract：:The high-throughput sequencing of nuclease-protected mRNA fragments bound to ribosomes, a technique known as ribosome profiling, quantifies the relative frequencies with which different regions of transcripts are translated. This technique has revealed novel translation initiation sites with unprecedented scope and ha...

journal_title：Nucleic acids research

authors： Martens AT,Taylor J,Hilser VJ

更新日期：2015-04-20 00:00:00

abstract：:MolProbity is a general-purpose web server offering quality validation for 3D structures of proteins, nucleic acids and complexes. It provides detailed all-atom contact analysis of any steric problems within the molecules as well as updated dihedral-angle diagnostics, and it can calculate and display the H-bond and va...

journal_title：Nucleic acids research

authors： Davis IW,Leaver-Fay A,Chen VB,Block JN,Kapral GJ,Wang X,Murray LW,Arendall WB 3rd,Snoeyink J,Richardson JS,Richardson DC

更新日期：2007-07-01 00:00:00

abstract：:Aside from classical loops among G-quadruplexes, the unique leaped V-shape scaffold spans over three G-tetrads, without any intervening residues. This scaffold enables a sharp reversal of two adjacent strand directions and simultaneously participates in forming the G-tetrad core. These features make this scaffold itse...

journal_title：Nucleic acids research

authors： Wan C,Fu W,Jing H,Zhang N

更新日期：2019-02-20 00:00:00

abstract：:Several plasmids which direct the expression of human interferon-gamma (IFN-gamma) cDNA in the yeast Saccharomyces cerevisiae under the transcriptional control of the 3-phosphoglycerate kinase (PGK) promoter have been constructed. Up to 25 x 10(6) units per liter culture of biologically active IFN-gamma are synthesize...

journal_title：Nucleic acids research

authors： Derynck R,Singh A,Goeddel DV

更新日期：1983-03-25 00:00:00

abstract：:Cryptic splice sites are used only when use of a natural splice site is disrupted by mutation. To determine the features that distinguish authentic from cryptic 5' splice sites (5'ss), we systematically analyzed a set of 76 cryptic 5'ss derived from 46 human genes. These cryptic 5'ss have a similar frequency distribut...

journal_title：Nucleic acids research

authors： Roca X,Sachidanandam R,Krainer AR

更新日期：2003-11-01 00:00:00