In vitro 3'-end endonucleolytic processing defect in a human mitochondrial tRNA(Ser(UCN)) precursor with the U7445C substitution, which causes non-syndromic deafness.

abstract：:As an increasing number of reliable protein-protein interactions (PPIs) become available and high-throughput experimental methods provide systematic identification of PPIs, there is a growing need for fast and accurate methods for discovering homologous PPIs of a newly determined PPI. PPISearch is a web server that ra...

journal_title：Nucleic acids research

authors： Chen CC,Lin CY,Lo YS,Yang JM

更新日期：2009-07-01 00:00:00

abstract：:The EcoCyc database (http://EcoCyc.org/) is a comprehensive source of information on the biology of the prototypical model organism Escherichia coli K12. The mission for EcoCyc is to contain both computable descriptions of, and detailed comments describing, all genes, proteins, pathways and molecular interactions in E...

journal_title：Nucleic acids research

authors： Keseler IM,Collado-Vides J,Gama-Castro S,Ingraham J,Paley S,Paulsen IT,Peralta-Gil M,Karp PD

更新日期：2005-01-01 00:00:00

abstract：:A highly polymorphic locus associated with the variable tandem repetition of a 35 bp consensus sequence was mapped to chromosome 10, band q26. Examination of leukocyte DNA from a cancer patient revealed the twenty-fold amplification of one allelic fragment of this locus, while the other allelic fragment demonstrated a...

journal_title：Nucleic acids research

authors： Colb M,Yang-Feng T,Francke U,Mermer B,Parkinson DR,Krontiris TG

更新日期：1986-10-24 00:00:00

abstract：:A single-helical B-type geometry is presented based on 1H NMR observations on d(TATA) and several other small single-helical DNA fragments. The structure is extended to one complete turn of double-helical DNA and its characteristics are compared with other known B-type structures. ...

journal_title：Nucleic acids research

authors： Mellema JR,van Kampen PN,Carlson CN,Bosshard HE,Altona C

更新日期：1983-05-11 00:00:00

abstract：:Enzymes of intermediary metabolism are often reported to have moonlighting functions as RNA-binding proteins and have regulatory roles beyond their primary activities. Human serine hydroxymethyltransferase (SHMT) is essential for the one-carbon metabolism, which sustains growth and proliferation in normal and tumour c...

journal_title：Nucleic acids research

authors： Guiducci G,Paone A,Tramonti A,Giardina G,Rinaldo S,Bouzidi A,Magnifico MC,Marani M,Menendez JA,Fatica A,Macone A,Armaos A,Tartaglia GG,Contestabile R,Paiardini A,Cutruzzolà F

更新日期：2019-05-07 00:00:00

abstract：:A prototype of a novel class of DNA alkylating agents, which combines the DNA crosslinking moiety chlorambucil (Chl) with a sequence-selective hairpin pyrrole-imidazole polyamide ImPy-beta-ImPy-gamma-ImPy-beta-Dp (polyamide 1), was evaluated for its ability to damage DNA and induce biological responses. Polyamide 1-Ch...

journal_title：Nucleic acids research

authors： Wang YD,Dziegielewski J,Wurtz NR,Dziegielewska B,Dervan PB,Beerman TA

更新日期：2003-02-15 00:00:00

abstract：:Direct visualization of DNA and proteins allows researchers to investigate DNA-protein interactions with great detail. Much progress has been made in this area as a result of increasingly sensitive single-molecule fluorescence techniques. At the same time, methods that control the conformation of DNA molecules have be...

journal_title：Nucleic acids research

authors： van Mameren J,Peterman EJ,Wuite GJ

更新日期：2008-08-01 00:00:00

abstract：:We have constructed and tested several new vectors for P element-mediated gene transfer. These vectors contain restriction sites for cloning a wide variety of DNA fragments within a small, non-autonomous P element and can be used to efficiently transduce microinjected DNA sequences into the germ line chromosomes of D....

journal_title：Nucleic acids research

authors： Rubin GM,Spradling AC

更新日期：1983-09-24 00:00:00

abstract：:Accurate T-cell epitope prediction is a principal objective of computational vaccinology. As a service to the immunology and vaccinology communities at large, we have implemented, as a server on the World Wide Web, a partial least squares-based multivariate statistical approach to the quantitative prediction of peptid...

journal_title：Nucleic acids research

authors： Guan P,Doytchinova IA,Zygouri C,Flower DR

更新日期：2003-07-01 00:00:00

abstract：:Three copies of a highly repetitive DNA sequence B1 which is complementary to the most abundant class of mouse fold-back RNA have been cloned in pBR322 plasmid and sequenced by the method of Maxam and Gilbert. All the three have a length of about 130 base pairs and are very similar in their base sequence. The deviatio...

journal_title：Nucleic acids research

authors： Krayev AS,Kramerov DA,Skryabin KG,Ryskov AP,Bayev AA,Georgiev GP

更新日期：1980-03-25 00:00:00

abstract：:The ARF tumour suppressor stabilizes p53 by negatively regulating the E3 ubiquitin ligase MDM2 to promote cell cycle arrest and cell death. However, ARF is also able to arrest cell proliferation by inhibiting ribosome biogenesis. In greater part this is achieved by targeting the transcription termination factor I (TTF...

journal_title：Nucleic acids research

authors： Lessard F,Stefanovsky V,Tremblay MG,Moss T

更新日期：2012-07-01 00:00:00

abstract：:A comprehensive listing is made of posttranscriptionally modified nucleosides from RNA reported in the literature through mid-1994. Included are chemical structures, common names, symbols, Chemical Abstracts registry numbers (for ribonucleoside and corresponding base), Chemical Abstracts Index Name, phylogenetic sourc...

journal_title：Nucleic acids research

authors： Limbach PA,Crain PF,McCloskey JA

更新日期：1994-06-25 00:00:00

abstract：:Despite the development of new high-throughput sequencing techniques, microarrays are still attractive tools to study small genome organisms, thanks to sample multiplexing and high-feature densities. However, the oligonucleotide design remains a delicate step for most users. A vast array of software is available to de...

journal_title：Nucleic acids research

authors： Jourdren L,Duclos A,Brion C,Portnoy T,Mathis H,Margeot A,Le Crom S

更新日期：2010-06-01 00:00:00

abstract：:Superhelical PM2 DNA can be photochemically modified by u.v. irradiation. The variation of S20,w with dose shows the following characteristics. There is a linear increase from 28 to 31s produced by a low dose of u.v. irradiation (4,000 ergs/mm2). A plateau in S20,w occurs between 4,000 and 10,000 ergs/mm2. The S20,w t...

journal_title：Nucleic acids research

authors： Woodworth-Gutai M,Lebowitz J,Kato AC,Denhardt DT

更新日期：1977-01-01 00:00:00

abstract：:We present a new publicly accessible web-service, RiboSoft, which implements a comprehensive hammerhead ribozyme design procedure. It accepts as input a target sequence (and some design parameters) then generates a set of ranked hammerhead ribozymes, which target the input sequence. This paper describes the implemente...

journal_title：Nucleic acids research

authors： Kharma N,Varin L,Abu-Baker A,Ouellet J,Najeh S,Ehdaeivand MR,Belmonte G,Ambri A,Rouleau G,Perreault J

更新日期：2016-02-29 00:00:00

abstract：:The InParanoid eukaryotic ortholog database (http://InParanoid.sbc.su.se/) has been updated to version 6 and is now based on 35 species. We collected all available 'complete' eukaryotic proteomes and Escherichia coli, and calculated ortholog groups for all 595 species pairs using the InParanoid program. This resulted ...

journal_title：Nucleic acids research

authors： Berglund AC,Sjölund E,Ostlund G,Sonnhammer EL

更新日期：2008-01-01 00:00:00

abstract：:The replacement of thymidine with 5-bromo-2'-deoxyuridine (BrdU) is well-known to sensitize cells to ionizing radiation and photoirradiation. We reported here the sequence-dependent formation of intrastrand crosslink products from the UVB irradiation of duplex oligodeoxynucleotides harboring a BrdU or its closely rela...

journal_title：Nucleic acids research

authors： Zeng Y,Wang Y

更新日期：2006-01-01 00:00:00

abstract：:DNA replication of phi29 and related phages takes place via a strand displacement mechanism, a process that generates large amounts of single-stranded DNA (ssDNA). Consequently, phage-encoded ssDNA-binding proteins (SSBs) are essential proteins during phage phi29-like DNA replication. In the present work we analyze th...

journal_title：Nucleic acids research

authors： Gascón I,Lázaro JM,Salas M

更新日期：2000-05-15 00:00:00

abstract：:We describe a versatile genetic system for rapid analysis of mammalian gene function. In this, loss of reporter activity in a novel embryonic stem (ES) cell line enables rapid identification of targeting to the ubiquitously expressed Rosa26 locus. Subsequent regulation of gene activity is governed by a dual regulatory...

journal_title：Nucleic acids research

authors： Mao J,Barrow J,McMahon J,Vaughan J,McMahon AP

更新日期：2005-10-12 00:00:00

abstract：:The interpretation of data-driven experiments in genomics often involves a search for biological categories that are enriched for the responder genes identified by the experiments. However, knowledge bases such as the Gene Ontology (GO) contain hundreds or thousands of categories with very high overlap between categor...

journal_title：Nucleic acids research

authors： Bauer S,Gagneur J,Robinson PN

更新日期：2010-06-01 00:00:00

abstract：:The FSSP database presents a continuously updated classification of 3-D protein folds based on an all-against-all comparison of structures currently in the Protein Data Bank (PDB) [Bernstein et al. (1977) J. Mol. Biol., 112, 535- 542]. The database currently contains an extended structural family for each of 600 repre...

journal_title：Nucleic acids research

authors： Holm L,Sander C

更新日期：1996-01-01 00:00:00

abstract：:Influenza A viruses are hosted by numerous avian and mammalian species, which have shaped their evolution into distinct lineages worldwide. The viral genome consists of eight RNA segments that are frequently exchanged between different viruses via a process known as genetic reassortment. A complete genotype nomenclatu...

journal_title：Nucleic acids research

authors： Lu G,Rowley T,Garten R,Donis RO

更新日期：2007-07-01 00:00:00

abstract：:Cancer-associated somatic mutations outside protein-coding regions remain largely unexplored. Analyses of the TERT locus have indicated that non-coding regulatory mutations can be more frequent than previously suspected and play important roles in oncogenesis. Using a computational method called SASE-hunter, developed...

journal_title：Nucleic acids research

authors： Smith KS,Yadav VK,Pedersen BS,Shaknovich R,Geraci MW,Pollard KS,De S

更新日期：2015-06-23 00:00:00

abstract：:The sequence of the 1173 nt 12S kinetoplast ribosomal RNA from Leishmania tarentolae was determined from the maxicircle DNA sequence, and the 5' and 3' ends localized by primer runoff and S1 nuclease protection experiments. The gene was shown to be free of introns by S1 nuclease analysis. A partial secondary structure...

journal_title：Nucleic acids research

authors： de la Cruz VF,Simpson AM,Lake JA,Simpson L

更新日期：1985-04-11 00:00:00

abstract：:By means of a combination of ion-exchange and sequence-specific affinity chromatography techniques, we have purified to homogeneity two protein complexes binding in a human DNA region (B48) previously recognized to contain a DNA replication origin. The DNA sequence used for the protein purification (B48 binding site) ...

journal_title：Nucleic acids research

authors： Tóth EC,Marusic L,Ochem A,Patthy A,Pongor S,Giacca M,Falaschi A

更新日期：1993-07-11 00:00:00

abstract：:The nucleotide sequence of a Pseudomonas trans-zeatin producing gene (ptz) from the pCK1 plasmid of Pseudomonas syringae pv. savastanoi strain 1006 has been determined. This gene confers upon E. coli the ability to synthesize and secrete several cytokinins including trans-zeatin, iso-pentenyladenine and their respecti...

journal_title：Nucleic acids research

authors： Powell GK,Morris RO

更新日期：1986-03-25 00:00:00

abstract：:We investigated how Escherichia coli ClpXP targets the helicase-nuclease (HsdR) subunit of the bacterial Type I restriction-modification enzyme EcoKI during restriction alleviation (RA). RA is a temporary reduction in endonuclease activity that occurs when Type I enzymes bind unmodified recognition sites on the host g...

journal_title：Nucleic acids research

authors： Simons M,Diffin FM,Szczelkun MD

更新日期：2014-10-29 00:00:00

abstract：:DNA double stranded breaks (DSBs) are one of the most deleterious types of DNA lesions. The main pathways responsible for repairing these breaks in eukaryotic cells are homologous recombination (HR) and non-homologous end-joining (NHEJ). However, a third group of still poorly characterized DSB repair pathways, collect...

journal_title：Nucleic acids research

authors： Kostyrko K,Mermod N

更新日期：2016-04-07 00:00:00

abstract：:An effective tool for the global analysis of both DNA methylation status and protein-chromatin interactions is a microarray constructed with sequences containing regulatory elements. One type of array suited for this purpose takes advantage of the strong association between CpG Islands (CGIs) and gene regulatory regio...

journal_title：Nucleic acids research

authors： Heisler LE,Torti D,Boutros PC,Watson J,Chan C,Winegarden N,Takahashi M,Yau P,Huang TH,Farnham PJ,Jurisica I,Woodgett JR,Bremner R,Penn LZ,Der SD

更新日期：2005-05-23 00:00:00

abstract：:A new thermodynamic database for normal and modified nucleic acids has been developed. This Thermodynamic Database for Nucleic Acids (NTDB) includes sequence, structure and thermodynamic information as well as experimental methods and conditions. In this release, there are 1851 sequences containing both normal and mod...

journal_title：Nucleic acids research

authors： Chiu WL,Sze CN,Ip LN,Chan SK,Au-Yeung SC

更新日期：2001-01-01 00:00:00