VIDA: a virus database system for the organization of animal virus genome open reading frames.

abstract：:Genome-wide expression profiling is a powerful tool for implicating novel gene ensembles in cellular mechanisms of health and disease. The most popular platform for genome-wide expression profiling is the Affymetrix GeneChip. However, its selection of probes relied on earlier genome and transcriptome annotation which ...

journal_title：Nucleic acids research

authors： Dai M,Wang P,Boyd AD,Kostov G,Athey B,Jones EG,Bunney WE,Myers RM,Speed TP,Akil H,Watson SJ,Meng F

更新日期：2005-11-10 00:00:00

abstract：:The thermal stability of the Tn10 encoded tetracycline resistance (TET) gene control region is investigated by melting studies using purified DNA restriction fragments containing various amounts of flanking sequences. In order to study the thermodynamic properties of this control region under conditions, where enough ...

journal_title：Nucleic acids research

authors： Hillen W,Unger B

更新日期：1982-04-24 00:00:00

abstract：:Archaeal family-B DNA polymerases bind tightly to deaminated bases and stall replication on encountering uracil in template strands, four bases ahead of the primer-template junction. Should the polymerase progress further towards the uracil, for example, to position uracil only two bases in front of the junction, 3'-5...

journal_title：Nucleic acids research

authors： Richardson TT,Wu X,Keith BJ,Heslop P,Jones AC,Connolly BA

更新日期：2013-02-01 00:00:00

abstract：:LNA oligonucleotides constitute a class of bicyclic RNA analogues having an exceptionally high affinity for their complementary DNA and RNA target molecules. We here report a novel method for highly efficient isolation of intact poly(A)+ RNA using an LNA-substituted oligo(dT) affinity ligand, based on the increased af...

journal_title：Nucleic acids research

authors： Jacobsen N,Nielsen PS,Jeffares DC,Eriksen J,Ohlsson H,Arctander P,Kauppinen S

更新日期：2004-04-19 00:00:00

abstract：:This laboratory has established in previous studies that Pmel 17, a gene expressed specifically in melanocytes, maps near the silver coat color locus (si/si) on mouse chromosome 10. In the current study, we have focused on determining whether or not the si allele carries a mutation in Pmel 17. Pmel 17 cDNA clones, iso...

journal_title：Nucleic acids research

authors： Kwon BS,Halaban R,Ponnazhagan S,Kim K,Chintamaneni C,Bennett D,Pickard RT

更新日期：1995-01-11 00:00:00

abstract：:Highly regulated induction systems enabling dose-dependent and reversible fine-tuning of protein expression output are beneficial for engineering complex biosynthetic pathways. To address this, we developed PhiReX, a novel red/far-red light-regulated protein expression system for use in Saccharomyces cerevisiae. PhiRe...

journal_title：Nucleic acids research

authors： Hochrein L,Machens F,Messerschmidt K,Mueller-Roeber B

更新日期：2017-09-06 00:00:00

abstract：:The mouse c-Ki-ras protooncogene promoter contains a homopurine-homopyrimidine domain that exhibits S1 nuclease sensitivity in vitro. We have studied the structure of this DNA region in a supercoiled state using a number of chemical probes for non-B DNA conformations including diethyl pyrocarbonate, osmium tetroxide, ...

journal_title：Nucleic acids research

authors： Pestov DG,Dayn A,Siyanova EYu,George DL,Mirkin SM

更新日期：1991-12-11 00:00:00

abstract：:A downstream G-rich sequence (GRS), GGGGGAGGUGUGGG, has been previously shown to influence the efficiency of 3' end processing of the SV40 late polyadenylation signal. We have now defined several important parameters for GRS-mediated polyadenylation. The ability of the GRS to influence 3' end processing efficiency was...

journal_title：Nucleic acids research

authors： Bagga PS,Ford LP,Chen F,Wilusz J

更新日期：1995-05-11 00:00:00

abstract：:The origin of replication of the c-myc gene in HeLa cells was previously identified at low resolution within 3.5 kb 5' to the P1 promoter, based on replication fork polarity and the location of DNA nascent strands. To define the initiation events in the c-myc origin at higher resolution the template bias of nascent DN...

journal_title：Nucleic acids research

authors： Waltz SE,Trivedi AA,Leffak M

更新日期：1996-05-15 00:00:00

abstract：:Eight base analogs were tested as third strand residues in otherwise homopyrimidine strands opposite each of the 'direct' (A.T and G.C) and 'inverted' (T.A and C.G) Watson-Crick base pairs, using UV melting profiles to assess triplex stability. The target duplexes contained 20 A.T base pairs and a central test base pa...

journal_title：Nucleic acids research

authors： Amosova OA,Fresco JR

更新日期：1999-12-01 00:00:00

abstract：:DEAD-box helicases catalyze the non-processive unwinding of double-stranded RNA (dsRNA) at the expense of adenosine triphosphate (ATP) hydrolysis. Nucleotide and RNA binding and unwinding are mediated by the RecA domains of the helicase core, but their cooperation in these processes remains poorly understood. We there...

journal_title：Nucleic acids research

authors： Samatanga B,Klostermeier D

更新日期：2014-01-01 00:00:00

abstract：:A computer program has been developed which aids in the determination of restriction enzyme recognition sequences. This is achieved by cleaving DNAs of known sequence with a restriction endonuclease and comparing the fragmentation pattern with a computer-generated set of patterns. The feasibility of this approach has ...

journal_title：Nucleic acids research

authors： Gingeras TR,MIlazzo JP,Roberts RJ

更新日期：1978-11-01 00:00:00

abstract：:Type IV effectors (T4Es) are proteins produced by pathogenic bacteria to manipulate host cell gene expression and processes, divert the cell machinery for their own profit and circumvent the immune responses. T4Es have been characterized for some bacteria but many remain to be discovered. To help biologists identify p...

journal_title：Nucleic acids research

authors： Meyer DF,Noroy C,Moumène A,Raffaele S,Albina E,Vachiéry N

更新日期：2013-11-01 00:00:00

abstract：:In small oocytes of Xenopus species, two sets of 5S RNA genes, oocyte-type and somatic-type, are fully activated. The 5S RNA transcripts are temporarily stored, half in association with TFIIIA to form a 7S particle, the other half in association with tRNA and two proteins (p48 and p43) to form a 42S particle. It has b...

journal_title：Nucleic acids research

authors： Barrett P,Sommerville J

更新日期：1987-11-11 00:00:00

abstract：:We previously showed that mRNAs synthesized from three genes that naturally lack introns contain a portion of their coding sequence, known as a cytoplasmic accumulation region (CAR), which is essential for stable accumulation of the intronless mRNAs in the cytoplasm. The CAR in each mRNA is unexpectedly large, ranging...

journal_title：Nucleic acids research

authors： Lei H,Zhai B,Yin S,Gygi S,Reed R

更新日期：2013-02-01 00:00:00

abstract：:The Evidence and Conclusion Ontology (ECO) contains terms (classes) that describe types of evidence and assertion methods. ECO terms are used in the process of biocuration to capture the evidence that supports biological assertions (e.g. gene product X has function Y as supported by evidence Z). Capture of this inform...

journal_title：Nucleic acids research

authors： Giglio M,Tauber R,Nadendla S,Munro J,Olley D,Ball S,Mitraka E,Schriml LM,Gaudet P,Hobbs ET,Erill I,Siegele DA,Hu JC,Mungall C,Chibucos MC

更新日期：2019-01-08 00:00:00

abstract：:PROtein Domain Organization and Comparison (PRODOC) comprises several programs that enable convenient comparison of proteins as a sequence of domains. The in-built dataset currently consists of approximately 698 000 proteins from 192 organisms with complete genomic data, and all the SWISSPROT proteins obtained from th...

journal_title：Nucleic acids research

authors： Krishnadev O,Rekha N,Pandit SB,Abhiman S,Mohanty S,Swapna LS,Gore S,Srinivasan N

更新日期：2005-07-01 00:00:00

abstract：:Alternative splicing constitutes a major mechanism creating protein diversity in humans. This diversity can result from the alternative skipping of entire exons or by alternative selection of the 5' or 3' splice sites that define the exon boundaries. In this study, we analyze the sequence and evolutionary characterist...

journal_title：Nucleic acids research

authors： Akerman M,Mandel-Gutfreund Y

更新日期：2007-01-01 00:00:00

abstract：:A strategy for DNA computing on surfaces using linked sets of 'DNA words' that are short oligonucleotides (16mers) is proposed. The 16mer words have the format 5'-FFFFvvvvvvvvFFFF-3' in which 4-8 bits of data are stored in 8 variable ('v') base locations, and the remaining fixed ('F') base locations are used as a word...

journal_title：Nucleic acids research

authors： Frutos AG,Liu Q,Thiel AJ,Sanner AM,Condon AE,Smith LM,Corn RM

更新日期：1997-12-01 00:00:00

abstract：:The promoter of the human BCR gene, regulating the transcription of the chimeric BCR/ABL mRNA in leukemia, has been isolated and characterized. A region of 1.1 kb immediately 5' to the transcription start site was analyzed in detail by sequencing, DNase 1 footprinting, gel retardation and functional studies. These exp...

journal_title：Nucleic acids research

authors： Zhu QS,Heisterkamp N,Groffen J

更新日期：1990-12-11 00:00:00

abstract：:The sigma(54) factor associates with core RNA polymerase (RNAP) to form a holoenzyme that is unable to initiate transcription unless acted on by an activator protein. sigma(54) is closely involved in many steps of activator-dependent transcription, such as core RNAP binding, promoter recognition, activator interaction...

journal_title：Nucleic acids research

authors： Xiao Y,Wigneshweraraj SR,Weinzierl R,Wang YP,Buck M

更新日期：2009-07-01 00:00:00

abstract：:Owing to their great potentials in genetic code extension and the development of nucleic acid-based functional nanodevices, DNA duplexes containing HgII-mediated base pairs have been extensively studied during the past 60 years. However, structural basis underlying these base pairs remains poorly understood. Herein, w...

journal_title：Nucleic acids research

authors： Liu H,Cai C,Haruehanroengra P,Yao Q,Chen Y,Yang C,Luo Q,Wu B,Li J,Ma J,Sheng J,Gan J

更新日期：2017-03-17 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：:DNA polymerase III (DNA pol III) efficiently replicates the Escherichia coli genome, but it cannot bypass DNA damage. Instead, translesion synthesis (TLS) DNA polymerases are employed to replicate past damaged DNA; however, the exchange of replicative for TLS polymerases is not understood. The umuD gene products, whic...

journal_title：Nucleic acids research

authors： Silva MC,Nevin P,Ronayne EA,Beuning PJ

更新日期：2012-07-01 00:00:00

abstract：:We used 2D protein gel electrophoresis and DNA microarray technologies to systematically analyze genes under glucose repression in B:acillus subtilis. In particular, we focused on genes expressed after the shift from glycolytic to gluconeogenic at the middle logarithmic phase of growth in a nutrient sporulation medium...

journal_title：Nucleic acids research

authors： Yoshida K,Kobayashi K,Miwa Y,Kang CM,Matsunaga M,Yamaguchi H,Tojo S,Yamamoto M,Nishi R,Ogasawara N,Nakayama T,Fujita Y

更新日期：2001-02-01 00:00:00

abstract：:The modified nucleoside, 7-(4,5-cis-dihydroxy-1-cyclopenten-3-yl-aminomethyl)-7-deazaguanosine, designated as Q, and its derivative, Q*, were found in tRNA's from various organisms, including several mammalian tissues, other animals such as starfish, lingula and hagfish, and wheat germ. Q isolated from rat liver tRNA ...

journal_title：Nucleic acids research

authors： Kasai H,Kuchino Y,Nihei K,Nishimura S

更新日期：1975-10-01 00:00:00

abstract：:EcoCyc is an organism-specific Pathway/Genome Database that describes the metabolic and signal-transduction pathways of Escherichia coli, its enzymes, and-a new addition-its transport proteins. MetaCyc is a new metabolic-pathway database that describes pathways and enzymes of many different organisms, with a microbial...

journal_title：Nucleic acids research

authors： Karp PD,Riley M,Saier M,Paulsen IT,Paley SM,Pellegrini-Toole A

更新日期：2000-01-01 00:00:00

abstract：:Various in vivo mutagenesis methods have been developed to facilitate fast and efficient continuous evolution of proteins in cells. However, they either modify the DNA region that does not match the target gene, or suffer from low mutation rates. Here, we report a mutator, eMutaT7 (enhanced MutaT7), with very fast in ...

journal_title：Nucleic acids research

authors： Park H,Kim S

更新日期：2021-01-06 00:00:00

abstract：:Alu elements have repeatedly been found involved in gene rearrangements in humans. Although these elements have been suggested to stimulate gene rearrangements, sparse information is available for the possible mechanism(s) of these events. Here we present a compilation of Alu elements that have been involved in recomb...

journal_title：Nucleic acids research

authors： Rüdiger NS,Gregersen N,Kielland-Brandt MC

更新日期：1995-01-25 00:00:00

abstract：:Members of the basic helix-loop-helix (bHLH) family of transcription factors regulate a wide array of developmental processes in many cell types, including cell fate specification, differentiation and morphogenesis. Our studies describe the cloning of a gene from the nematode Caenorhabditis elegans that is closely rel...

journal_title：Nucleic acids research

authors： Nguyen L,Round J,O'Connell R,Geurts P,Funes-Duran M,Wong J,Jongeward G,Vierra CA

更新日期：2001-11-01 00:00:00