Sequence data handling by computer.

abstract：:As proteomics initiatives mature, the need will arise for the multiple visualization of proteins and supramolecular complexes within their true context, in situ. Single-stranded DNA and RNA aptamers can be used for low resolution imaging of cellular receptors and cytoplasmic proteins by light microscopy (LM). These te...

journal_title：Nucleic acids research

authors： Dellaire G,Nisman R,Eskiw CH,Bazett-Jones DP

更新日期：2004-11-23 00:00:00

abstract：:Actinomycin D (ActD) is a small molecule with strong antibiotic and anticancer activity. However, its biologically relevant DNA-binding mechanism has never been resolved, with some studies suggesting that the primary binding mode is intercalation, and others suggesting that single-stranded DNA binding is most importan...

journal_title：Nucleic acids research

authors： Paramanathan T,Vladescu I,McCauley MJ,Rouzina I,Williams MC

更新日期：2012-06-01 00:00:00

abstract：:We have previously described a partial Drosophila cDNA, clone P19, which bears homology to members of the RNA recognition motif (RRM) family of proteins [Haynes et al. (1987) Proc. Natl. Acad. Sci. USA, 84, 1819-1823]. RNA binding as well as involvement in RNA processing has been demonstrated for some RRM proteins. We...

journal_title：Nucleic acids research

authors： Stolow DT,Haynes SR

更新日期：1995-03-11 00:00:00

abstract：:The essential splicing factor Prp24 contains four RNA Recognition Motif (RRM) domains, and functions to anneal U6 and U4 RNAs during spliceosome assembly. Here, we report the structure and characterization of the C-terminal RRM4. This domain adopts a novel non-canonical RRM fold with two additional flanking α-helices ...

journal_title：Nucleic acids research

authors： Martin-Tumasz S,Richie AC,Clos LJ 2nd,Brow DA,Butcher SE

更新日期：2011-09-01 00:00:00

abstract：:OrthoDB is a comprehensive catalog of orthologs, genes inherited by extant species from a single gene in their last common ancestor. In 2016 OrthoDB reached its 9th release, growing to over 22 million genes from over 5000 species, now adding plants, archaea and viruses. In this update we focused on usability of this f...

journal_title：Nucleic acids research

authors： Zdobnov EM,Tegenfeldt F,Kuznetsov D,Waterhouse RM,Simão FA,Ioannidis P,Seppey M,Loetscher A,Kriventseva EV

更新日期：2017-01-04 00:00:00

abstract：:A modification of previously described methods of electron microscopic gene mapping and of gene enrichment based on the avidin-biotin interaction is presented. The modification consists of coupling cytochrome-c instead of pentane diamine to the oxidized 2', 3' terminus of an RNA by Schiff base formation and BH-4 reduc...

journal_title：Nucleic acids research

authors： Sodja A,Davidson N

更新日期：1978-02-01 00:00:00

abstract：:Oxanine (O) is a deamination product derived from guanine with the nitrogen at the N1 position substituted by oxygen. Cytosine, thymine, adenine, guanine as well as oxanine itself can be incorporated by Klenow Fragment to pair with oxanine in a DNA template with similar efficiency, indicating that oxanine in DNA may c...

journal_title：Nucleic acids research

authors： Hitchcock TM,Gao H,Cao W

更新日期：2004-08-02 00:00:00

abstract：:1731, a Drosophila retrotransposon was first described as having a transcription activity which was negatively regulated by 20-hydroxyecdysone (20-OH), the steroid molting hormone of insects. Using constructions expressing the bacterial chloramphenicol-acetyltransferase (CAT) gene under the control of the entire or de...

journal_title：Nucleic acids research

authors： Ziarczyk P,Best-Belpomme M

更新日期：1991-10-25 00:00:00

abstract：:A nucleic acid affinity matrix containing a short oligodeoxynucleotide ligand has been prepared as an example of a material which can be used for the rapid and effective isolation of sequence specific DNA binding proteins. Two complementary oligodeoxynucleotides have been employed, one of which contains a small 5'-spa...

journal_title：Nucleic acids research

authors： Blanks R,McLaughlin LW

更新日期：1988-11-11 00:00:00

abstract：:Period2 (Per2) is an essential component of the mammalian clock mechanism and robust circadian expression of Per2 is essential for the maintenance of circadian rhythms. Although recent studies have shown that the circadian E2 enhancer (a non-canonical E-box) accounts for most of the circadian transcriptional drive of ...

journal_title：Nucleic acids research

authors： Ohno T,Onishi Y,Ishida N

更新日期：2007-01-01 00:00:00

abstract：:Adjustable transgene expression is considered key for next-generation molecular interventions in gene therapy scenarios, therapeutic reprogramming of clinical cell phenotypes for tissue engineering and sophisticated gene-function analyses in the post-genomic era. We have designed a portfolio of latest generation self-...

journal_title：Nucleic acids research

authors： Mitta B,Weber CC,Rimann M,Fussenegger M

更新日期：2004-07-16 00:00:00

abstract：:GC-AG introns represent 0.7% of total human pre-mRNA introns. To study the function of GC-AG introns in splicing regulation, 196 cDNA-confirmed GC-AG introns were identified in Caenorhabditis elegans. These represent 0.6% of the cDNA- confirmed intron data set for this organism. Eleven of these GC-AG introns are invol...

journal_title：Nucleic acids research

authors： Farrer T,Roller AB,Kent WJ,Zahler AM

更新日期：2002-08-01 00:00:00

abstract：:Nucleotide excision repair (NER) is a major DNA repair pathway for a variety of DNA lesions. XPB plays a key role in DNA opening at damage sites and coordinating damage incision by nucleases. XPB is conserved from archaea to human. In archaea, XPB is associated with a nuclease Bax1. Here we report crystal structures o...

journal_title：Nucleic acids research

authors： DuPrez K,He F,Chen Z,Hilario E,Fan L

更新日期：2020-06-19 00:00:00

abstract：:The location of target DNA sequences within chromatin may affect the ability of trans-acting factors to bind cis-elements and regulate gene transcription. To examine the effect of chromatin structure on the ability of the estrogen-estrogen receptor complex (E2R) to bind its respective DNA binding element within the ra...

journal_title：Nucleic acids research

authors： Willis SD,Seyfred MA

更新日期：1996-03-15 00:00:00

abstract：:The activation of a telomere maintenance mechanism is required for cancer development in humans. While most tumors achieve this by expressing the enzyme telomerase, a fraction (5-15%) employs a recombination-based mechanism termed alternative lengthening of telomeres (ALT). Here we show that loss of the single-strande...

journal_title：Nucleic acids research

authors： Grudic A,Jul-Larsen A,Haring SJ,Wold MS,Lønning PE,Bjerkvig R,Bøe SO

更新日期：2007-01-01 00:00:00

abstract：:The sequence of 436 nucleotides around the region coding for 5.8S RNA in the Sciara coprophila rDNA transcription unit (1) has been determined. Regions coding for 5.8S and 2S RNAs have been identified; they are 80 - 90% homologous to the corresponding Drosophila sequences and are separated by a 22 nucleotide long spac...

journal_title：Nucleic acids research

authors： Jordan BR,Latil-Damotte M,Jourdan R

更新日期：1980-08-25 00:00:00

abstract：:SPRING (http://algorithm.cs.nthu.edu.tw/tools/SPRING/) is a tool for the analysis of genome rearrangement between two chromosomal genomes using reversals and/or block-interchanges. SPRING takes two or more chromosomes as its input and then computes a minimum series of reversals and/or block-interchanges between any tw...

journal_title：Nucleic acids research

authors： Lin YC,Lu CL,Liu YC,Tang CY

更新日期：2006-07-01 00:00:00

abstract：:We have previously shown that integration of a polyoma vector containing rodent repetitive elements into rat cellular DNA is non-random (Wallenburg et al. J. Virol. 50: 678-683). Junctions between the polyoma vector and the host DNA occur in the repetitive sequences of the vector about ten times more frequently than w...

journal_title：Nucleic acids research

authors： Wallenburg JC,Nepveu A,Chartrand P

更新日期：1987-10-12 00:00:00

abstract：:Aberrant DNA methylation at CpG dinucleotides can result in epigenetic silencing of tumour suppressor genes and represents one of the earliest events in tumourigenesis. To date, however, high-throughput tools that are capable of surveying the methylation status of multiple gene promoters have been restricted to a limi...

journal_title：Nucleic acids research

authors： Mund C,Beier V,Bewerunge P,Dahms M,Lyko F,Hoheisel JD

更新日期：2005-04-28 00:00:00

abstract：:We have determined the nucleotide sequence of a 7.5 kb full-size gypsy element from Drosophila subobscura strain H-271. Comparative analyses were carried out on the sequence and molecular structure of gypsy elements of D.subobscura (gypsyDs), D.melanogaster (gypsyDm) and D.virilis (gypsyDv). The three elements show a ...

journal_title：Nucleic acids research

authors： Alberola TM,de Frutos R

更新日期：1996-03-01 00:00:00

abstract：:Transcription factors (TFs) regulate gene expression by binding to short DNA sequence motifs, yet their binding specificities alone cannot explain how certain TFs drive a diversity of biological processes. In order to investigate the factors that control the functions of the pleiotropic TF STAT3, we studied its genome...

journal_title：Nucleic acids research

authors： Hutchins AP,Diez D,Takahashi Y,Ahmad S,Jauch R,Tremblay ML,Miranda-Saavedra D

更新日期：2013-02-01 00:00:00

abstract：:A new method for specific reamplification of DDRT-PCR products is presented. After transient ligation of the primary DDRT-PCR fragments into a T-vector, the cDNAs of interest were reamplified by hemi-nested PCR and thermally asymmetric cycles. In contrast to the originally described protocol, this method of reamplific...

journal_title：Nucleic acids research

authors： Bonnet S,Prévot G,Bourgouin C

更新日期：1998-02-15 00:00:00

abstract：:Several different computational problems have been solved using DNA as a medium. However, the DNA computations that have so far been carried out have examined a relatively small number of possible sequence solutions in order to find correct sequence solutions. We have encoded a search algorithm in DNA that required th...

journal_title：Nucleic acids research

authors： James KD,Boles AR,Henckel D,Ellington AD

更新日期：1998-11-15 00:00:00

abstract：:In Xenopus oocytes, progesterone stimulates the cytoplasmic polyadenylation and resulting translational activation of c-mos mRNA, which is necessary for the induction of oocyte maturation. Although details of the biochemistry of polyadenylation are beginning to emerge, the mechanism by which 3' poly(A) addition stimul...

journal_title：Nucleic acids research

authors： Kuge H,Brownlee GG,Gershon PD,Richter JD

更新日期：1998-07-01 00:00:00

abstract：:The R-Coffee web server produces highly accurate multiple alignments of noncoding RNA (ncRNA) sequences, taking into account predicted secondary structures. R-Coffee uses a novel algorithm recently incorporated in the T-Coffee package. R-Coffee works along the same lines as T-Coffee: it uses pairwise or multiple seque...

journal_title：Nucleic acids research

authors： Moretti S,Wilm A,Higgins DG,Xenarios I,Notredame C

更新日期：2008-07-01 00:00:00

abstract：:We took advantage of the unusual genomic organization of the ciliate Oxytricha trifallax to screen for eukaryotic non-coding RNA (ncRNA) genes. Ciliates have two types of nuclei: a germ line micronucleus that is usually transcriptionally inactive, and a somatic macronucleus that contains a reduced, fragmented and rear...

journal_title：Nucleic acids research

authors： Jung S,Swart EC,Minx PJ,Magrini V,Mardis ER,Landweber LF,Eddy SR

更新日期：2011-09-01 00:00:00

abstract：:A differential effect is found of various bivalent cations (Ba2+, Ca2+, Mg2+, Cd2+, Co2+, Mn2+, Ni2+, Zn2+ and Hg2+) on stability of intermolecular Py-Pu-Pu triplex with different sequence of base triads. Ca2+, Mg2+, Cd2+, Co2+, Mn2+, Ni2+ and Zn2+ do stabilize the d(C)n d(G)n d(G)n triplex whereas Ba2+ and Hg2+ do no...

journal_title：Nucleic acids research

authors： Malkov VA,Voloshin ON,Soyfer VN,Frank-Kamenetskii MD

更新日期：1993-02-11 00:00:00

abstract：:The positions of the trfA and trfB promoters of broad host range IncP plasmid RK2 (identical to RP1, RP4, R68 and R18 ) were identified by RNA polymerase protection studies, and the nucleotide sequences of the promoter regions determined. A mutation within the trfA promoter sequence is associated with loss of kilD act...

journal_title：Nucleic acids research

authors： Smith CA,Shingler V,Thomas CM

更新日期：1984-04-25 00:00:00

abstract：:Near-UV difference spectral analysis of the triplex formed from d(C-T)6 and d(A-G)6.d(C-T)6 in neutral and acidic solution shows that the third strand dC residues are protonated at pH 7.0, far above their intrinsic pKa. Additional support for ion-dipole interactions between the third strand dC residues and the G.C tar...

journal_title：Nucleic acids research

authors： Lavelle L,Fresco JR

更新日期：1995-07-25 00:00:00

abstract：:The Ribosomal Database Project (RDP-II) provides the research community with aligned and annotated rRNA gene sequences, along with analysis services and a phylogenetically consistent taxonomic framework for these data. Updated monthly, these services are made available through the RDP-II website (http://rdp.cme.msu.ed...

journal_title：Nucleic acids research

authors： Cole JR,Chai B,Farris RJ,Wang Q,Kulam SA,McGarrell DM,Garrity GM,Tiedje JM

更新日期：2005-01-01 00:00:00