A multiplex platform for digital measurement of circular DNA reaction products.

abstract：:We previously constructed a multiribozyme expression vector by combining cis- and trans-acting ribozymes and we showed that several ribozymes, each directed against a different target in the HIV genome and acting independently in a 'shotgun' manner, markedly increased the efficiency of cleavage of HIV RNA in vitro [Oh...

journal_title：Nucleic acids research

authors： Yuyama N,Ohkawa J,Koguma T,Shirai M,Taira K

更新日期：1994-11-25 00:00:00

abstract：:The nucleotide sequence of the promoter region and the first five genes of the atp (or unc) operon of Escherichia coli has been determined. The first proposed gene in the operon contains four AUA codons and may be poorly expressed; it encodes a basic but yet hydrophobic protein which could function as a pilot protein ...

journal_title：Nucleic acids research

authors： Gay NJ,Walker JE

更新日期：1981-08-25 00:00:00

abstract：:The heterogeneous nuclear ribonucleoprotein (hnRNP) A2 is a multi-tasking protein that acts in the cytoplasm and nucleus. We have explored the possibility that this protein is associated with telomeres and participates in their maintenance. Rat brain hnRNP A2 was shown to have two nucleic acid binding sites. In the pr...

journal_title：Nucleic acids research

authors： Moran-Jones K,Wayman L,Kennedy DD,Reddel RR,Sara S,Snee MJ,Smith R

更新日期：2005-01-19 00:00:00

abstract：:In Arabidopsis thaliana, endogenous trans-acting and exogenous siRNA pathways are initiated by the interaction of DRB4 with trigger dsRNA. Further, DCL4:DRB4 complex cleaves the dsRNA into 21 bp siRNA. Understanding molecular determinants and mechanistic details of dsRNA recognition by DRB4 is vital for inducing long-...

journal_title：Nucleic acids research

authors： Chiliveri SC,Aute R,Rai U,Deshmukh MV

更新日期：2017-08-21 00:00:00

abstract：:The potent anticancer drug actinomycin D (ActD) functions by intercalating into DNA at GpC sites, thereby interrupting essential biological processes including replication and transcription. Certain neurological diseases are correlated with the expansion of (CGG)n trinucleotide sequences, which contain many contiguous...

journal_title：Nucleic acids research

authors： Lo YS,Tseng WH,Chuang CY,Hou MH

更新日期：2013-04-01 00:00:00

abstract：:The intrinsic stiffness of DNA limits its ability to be bent and twisted over short lengths, but such deformations are required for gene regulation. One classic paradigm is DNA looping in the regulation of the Escherichia coli lac operon. Lac repressor protein binds simultaneously to two operator sequences flanking th...

journal_title：Nucleic acids research

authors： Becker NA,Kahn JD,Maher LJ 3rd

更新日期：2007-01-01 00:00:00

abstract：:A method for the facile preparation of oligoribonucleotide analogues containing beta-d-allofuranosyl nucleosides with additional functional groups tethered to the 6'-O positions is presented. It is based on the synthesis of two protected nucleosides carrying a 6'-O -bromopentyl and a 6'-O -methylaminopentyl substituen...

journal_title：Nucleic acids research

authors： Wu X,Pitsch S

更新日期：1998-10-01 00:00:00

abstract：:Competition binding and UV melting studies of a DNA model system consisting of three, four or five mutually complementary oligonucleotides demonstrate that unpaired bases at the branch point stabilize three- and five-way junction loops but destabilize four-way junctions. The inclusion of unpaired nucleotides permits t...

journal_title：Nucleic acids research

authors： Kadrmas JL,Ravin AJ,Leontis NB

更新日期：1995-06-25 00:00:00

abstract：:Non-coding RNA regulatory elements are important for viral replication, making them promising targets for therapeutic intervention. However, regulatory RNA is challenging to detect and characterise using classical structure-function assays. Here, we present in cell Mutational Interference Mapping Experiment (in cell M...

journal_title：Nucleic acids research

authors： Smyth RP,Smith MR,Jousset AC,Despons L,Laumond G,Decoville T,Cattenoz P,Moog C,Jossinet F,Mougel M,Paillart JC,von Kleist M,Marquet R

更新日期：2018-05-18 00:00:00

abstract：:Nam8, a component of yeast U1 snRNP, is optional for mitotic growth but required during meiosis, because Nam8 collaborates with Mer1 to promote splicing of essential meiotic mRNAs AMA1, MER2 and MER3. Here, we identify SPO22 and PCH2 as novel targets of Nam8-dependent meiotic splicing. Whereas SPO22 splicing is co-dep...

journal_title：Nucleic acids research

authors： Qiu ZR,Schwer B,Shuman S

更新日期：2011-04-01 00:00:00

abstract：:Post-translational modifications contribute to the spliceosome dynamics by facilitating the physical rearrangements of the spliceosome. Here, we report USP15, a deubiquitinating enzyme, as a regulator of protein-protein interactions for the spliceosome dynamics. We show that PRP31, a component of U4 snRNP, is modified...

journal_title：Nucleic acids research

authors： Das T,Park JK,Park J,Kim E,Rape M,Kim EE,Song EJ

更新日期：2017-05-05 00:00:00

abstract：:Engineered derivatives of Autographa californica multiple nucleocapsid nuclear polyhedrosis virus (AcMNPV) possessing a unique restriction site provide a source of viral DNA that can be linearized by digestion with a specific endonuclease. Circular or linearized DNA from two such viruses were compared in terms of thei...

journal_title：Nucleic acids research

authors： Kitts PA,Ayres MD,Possee RD

更新日期：1990-10-11 00:00:00

abstract：:Proper cytokine gene expression is essential in development, homeostasis and immune responses. Studies on the transcriptional control of cytokine genes have mostly focused on highly researched transcription factors (TFs) and cytokines, resulting in an incomplete portrait of cytokine gene regulation. Here, we used enha...

journal_title：Nucleic acids research

authors： Santoso CS,Li Z,Lal S,Yuan S,Gan KA,Agosto LM,Liu X,Pro SC,Sewell JA,Henderson A,Atianand MK,Fuxman Bass JI

更新日期：2020-12-02 00:00:00

abstract：:MicroRNAs (miRNAs) are small noncoding RNAs that attenuate expression of their mRNA targets. Here, we developed a new method and an R package, to easily infer candidate miRNA-mRNA target interactions that could be functional during a given biological process. Using this method, we described, for the first time, a comp...

journal_title：Nucleic acids research

authors： Kassambara A,Jourdan M,Bruyer A,Robert N,Pantesco V,Elemento O,Klein B,Moreaux J

更新日期：2017-06-02 00:00:00

abstract：:The European Nucleotide Archive (ENA; http://www.ebi.ac.uk/ena) is a repository for the submission, maintenance and presentation of nucleotide sequence data and related sample and experimental information. In this article we report on ENA in 2015 regarding general activity, notable published data sets and major achiev...

journal_title：Nucleic acids research

authors： Gibson R,Alako B,Amid C,Cerdeño-Tárraga A,Cleland I,Goodgame N,Ten Hoopen P,Jayathilaka S,Kay S,Leinonen R,Liu X,Pallreddy S,Pakseresht N,Rajan J,Rosselló M,Silvester N,Smirnov D,Toribio AL,Vaughan D,Zalunin V,Coc

更新日期：2016-01-04 00:00:00

abstract：:Embryonic stem cells (ESCs) and meiosis are featured by relatively higher frequent homologous recombination associated with DNA double strand breaks (DSB) repair. Here, we show that Pold3 plays important roles in DSB repair, telomere maintenance and genomic stability of both ESCs and spermatocytes in mice. By attempti...

journal_title：Nucleic acids research

authors： Zhou Z,Wang L,Ge F,Gong P,Wang H,Wang F,Chen L,Liu L

更新日期：2018-04-20 00:00:00

abstract：:Diazo-based precursors of photolabile groups have been used extensively for modifying nucleic acids, with the intention of toggling biological processes with light. These processes include transcription, translation and RNA interference. In these cases, the photolabile groups have been typically depicted as modifying ...

journal_title：Nucleic acids research

authors： Shah S,Jain PK,Kala A,Karunakaran D,Friedman SH

更新日期：2009-07-01 00:00:00

abstract：:High throughput sequencing (HTS) platforms generate unprecedented amounts of data that introduce challenges for processing and downstream analysis. While tools that report the 'best' mapping location of each read provide a fast way to process HTS data, they are not suitable for many types of downstream analysis such a...

journal_title：Nucleic acids research

authors： Hach F,Sarrafi I,Hormozdiari F,Alkan C,Eichler EE,Sahinalp SC

更新日期：2014-07-01 00:00:00

abstract：:Minichromosome maintenance (MCM) proteins facilitate replication by licensing origins and unwinding the DNA double strand. Interestingly, the number of MCM hexamers greatly exceeds the number of firing origins suggesting additional roles of MCMs. Here we show a hitherto unanticipated function of MCM2 in cilia formatio...

journal_title：Nucleic acids research

authors： Casar Tena T,Maerz LD,Szafranski K,Groth M,Blätte TJ,Donow C,Matysik S,Walther P,Jeggo PA,Burkhalter MD,Philipp M

更新日期：2019-01-10 00:00:00

abstract：:The tight-binding I12-X86 lac repressor binds to non-operator DNA in a sequence-specific fashion. Using the DNA of the E. coli I gene we have investigated these sequence-specific interactions and compared them to the operator binding of wild-type repressor. The specific, non-operator DNA interactions are sensitive to ...

journal_title：Nucleic acids research

authors： Schmitz A,Galas DJ

更新日期：1980-02-11 00:00:00

abstract：:Molecular Biology Database List (MBDL) includes brief descriptions and pointers to Web sites for the various databases described in this issue as well as other Web sites presenting data sets relevant to molecular biology. This information is compiled into a list (http://www.oup.co.uk/nar/Volume_27/Issue_01/summary/ gk...

journal_title：Nucleic acids research

authors： Burks C

更新日期：1999-01-01 00:00:00

abstract：:The ability of Deinococcus radiodurans to recover from extensive DNA damage is due in part to its ability to efficiently repair its genome, even following severe fragmentation by hundreds of double-strand breaks. The single-strand annealing pathway plays an important role early during the recovery process, making use ...

journal_title：Nucleic acids research

authors： Sugiman-Marangos SN,Peel JK,Weiss YM,Ghirlando R,Junop MS

更新日期：2013-11-01 00:00:00

abstract：:The principal early promoter of human papillomaviruses (HPVs), designated P97 in the case of HPV-16, contains four characteristically aligned cis-responsive elements, namely one binding site for Sp1, two for the viral E2 proteins, and the TATA box. The Sp1 binding site is needed to mediate activation of P97 by the rem...

journal_title：Nucleic acids research

authors： Tan SH,Gloss B,Bernard HU

更新日期：1992-01-25 00:00:00

abstract：:The SRPDB (signal recognition particle database) provides annotated SRP RNA sequences from Eucaryotes and Archaea, phylogenetically ordered and aligned with their bacterial equivalents. We also make available representative RNA secondary structure diagrams, where each base pair is proven by comparative sequence analys...

journal_title：Nucleic acids research

authors： Larsen N,Zwieb C

更新日期：1993-07-01 00:00:00

abstract：:The base excision repair DNA glycosylase MutY homolog (MYH) is responsible for removing adenines misincorporated into DNA opposite guanine or 7,8-dihydro-8-oxo-guanine (8-oxoG), thereby preventing G:C to T:A mutations. Biallelic germline mutations in the human MYH gene predispose individuals to multiple colorectal ade...

journal_title：Nucleic acids research

authors： Bai H,Jones S,Guan X,Wilson TM,Sampson JR,Cheadle JP,Lu AL

更新日期：2005-01-26 00:00:00

abstract：:In Euplotes crassus millions of telomeres are synthesized during the sexual phase of the life cycle. Since these newly synthesized telomeres are longer than normal macronuclear telomeres, they must be trimmed to the mature size. We have examined the timing and mechanism of this trimming step. We have shown that a sudd...

journal_title：Nucleic acids research

authors： Vermeesch JR,Williams D,Price CM

更新日期：1993-11-25 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：:Abasic sites (AP-sites) are frequent DNA lesions, arising by spontaneous base hydrolysis or as intermediates of base excision repair (BER). The hemiacetal at the anomeric centre renders them chemically reactive, which presents a challenge to biochemical and structural investigation. Chemically more stable AP-site anal...

journal_title：Nucleic acids research

authors： Schuermann D,Scheidegger SP,Weber AR,Bjørås M,Leumann CJ,Schär P

更新日期：2016-03-18 00:00:00

abstract：:Gene transfer and expression in eukaryotes is often limited by a number of stably maintained gene copies and by epigenetic silencing effects. Silencing may be limited by the use of epigenetic regulatory sequences such as matrix attachment regions (MAR). Here, we show that successive transfections of MAR-containing vec...

journal_title：Nucleic acids research

authors： Grandjean M,Girod PA,Calabrese D,Kostyrko K,Wicht M,Yerly F,Mazza C,Beckmann JS,Martinet D,Mermod N

更新日期：2011-08-01 00:00:00

abstract：:Type IIS restriction endonuclease BtsCI (GGATG 2/0) is a neoschizomer of FokI (GGATG 9/13) and cleaves closer to the recognition sequence. Although M.BtsCI shows 62% amino acid sequence identity to M.FokI, BtsCI and FokI restriction endonucleases do not share significant amino acid sequence similarity. BtsCI belongs t...

journal_title：Nucleic acids research

authors： Too PH,Zhu Z,Chan SH,Xu SY

更新日期：2010-03-01 00:00:00