siRNAs from miRNA sites mediate DNA methylation of target genes.

abstract：:Proper DNA double-strand break (DSB) repair is essential for maintaining genome integrity. Microhomology-mediated end joining (MMEJ) is an error-prone repair mechanism, which introduces mutations at break sites and contributes to chromosomal translocations and telomere fusions, thus driving carcinogenesis. Mitotic kin...

journal_title：Nucleic acids research

authors： Wang H,Qiu Z,Liu B,Wu Y,Ren J,Liu Y,Zhao Y,Wang Y,Hao S,Li Z,Peng B,Xu X

更新日期：2018-11-16 00:00:00

abstract：:TFIIB plays a pivotal role during assembly of the RNA polymerase II transcription preinitiation complex. TFIIB is composed of two domains that engage in an intramolecular interaction that can be disrupted by the VP16 activation domain. In this study, we describe a novel human TFIIB derivative harbouring two point muta...

journal_title：Nucleic acids research

authors： Glossop JA,Dafforn TR,Roberts SG

更新日期：2004-03-22 00:00:00

abstract：:Molecular dynamics simulations were performed on the duplex DNA dodecamers d(CGCGAA TT CGCG): d(CGCGAATTCGCG) and d(GCACGAA TT AAG): d(CTTAATTCGTGC), where TT denotes a cis, syn cyclobutane thymine dimer. The constant temperature and pressure algorithm of the AMBER 4.1 molecular-modeling package was used with explicit...

journal_title：Nucleic acids research

authors： Cooney MG,Miller JH

更新日期：1997-04-01 00:00:00

abstract：:Repression of cellular reprogramming in germ cells is critical to maintaining cell fate and fertility. When germ cells mis-express somatic genes they can be directly converted into other cell types, resulting in loss of totipotency and reproductive potential. Identifying the molecular mechanisms that coordinate these ...

journal_title：Nucleic acids research

authors： Rogers AK,Phillips CM

更新日期：2020-05-07 00:00:00

abstract：:Two factors are mainly responsible for the stability of the DNA double helix: base pairing between complementary strands and stacking between adjacent bases. By studying DNA molecules with solitary nicks and gaps we measure temperature and salt dependence of the stacking free energy of the DNA double helix. For the fi...

journal_title：Nucleic acids research

authors： Yakovchuk P,Protozanova E,Frank-Kamenetskii MD

更新日期：2006-01-31 00:00:00

abstract：:The widely accepted model for the processing of tRNAs in Escherichia coli involves essential initial cleavages by RNase E within polycistronic transcripts to generate pre-tRNAs that subsequently become substrates for RNase P. However, recently we identified two polycistronic tRNA transcripts whose endonucleolytic proc...

journal_title：Nucleic acids research

authors： Mohanty BK,Kushner SR

更新日期：2008-02-01 00:00:00

abstract：:In synthetic circuits, CRISPR-Cas systems have been used effectively for endpoint changes from an initial state to a final state, such as in logic gates. Here, we use deactivated Cas9 (dCas9) and deactivated Cas12a (dCas12a) to construct dynamic RNA ring oscillators that cycle continuously between states over time in ...

journal_title：Nucleic acids research

authors： Kuo J,Yuan R,Sánchez C,Paulsson J,Silver PA

更新日期：2020-08-20 00:00:00

abstract：:We observed overexpression and increased intra-nuclear accumulation of the PRMT5/WDR77 in breast cancer cell lines relative to immortalized breast epithelial cells. Utilizing mass spectrometry and biochemistry approaches we identified the Zn-finger protein ZNF326, as a novel interaction partner and substrate of the nu...

journal_title：Nucleic acids research

authors： Rengasamy M,Zhang F,Vashisht A,Song WM,Aguilo F,Sun Y,Li S,Zhang W,Zhang B,Wohlschlegel JA,Walsh MJ

更新日期：2017-11-02 00:00:00

abstract：:A U3 snoRNA gene isolated from a Chlamydomonas reinhardtii (CRE:) genomic library contains putative pol III-specific transcription signals similar to those of RNA polymerase III-specific small nuclear (sn)RNA genes of higher plants. The 222 nt long CRE: U3 snoRNA was immunoprecipitated by anti-gamma-mpppN antisera, bu...

journal_title：Nucleic acids research

authors： Antal M,Mougin A,Kis M,Boros E,Steger G,Jakab G,Solymosy F,Branlant C

更新日期：2000-08-01 00:00:00

abstract：:Toscana virus (TOSV) is an arthropod-borne human pathogen responsible for seasonal outbreaks of fever and meningoencephalitis in the Mediterranean basin. TOSV is a segmented negative-strand RNA virus (sNSV) that belongs to the genus phlebovirus (family Phenuiviridae, order Bunyavirales), encompassing other important h...

journal_title：Nucleic acids research

authors： Jones R,Lessoued S,Meier K,Devignot S,Barata-García S,Mate M,Bragagnolo G,Weber F,Rosenthal M,Reguera J

更新日期：2019-11-18 00:00:00

abstract：:The HIV-1 viral infectivity factor (Vif) allows productive infection of non-permissive cells (including most natural HIV-1 targets) by counteracting the cellular cytosine deaminases APOBEC-3G (hA3G) and hA3F. The Vif-induced degradation of these restriction factors by the proteasome has been extensively studied, but l...

journal_title：Nucleic acids research

authors： Mercenne G,Bernacchi S,Richer D,Bec G,Henriet S,Paillart JC,Marquet R

更新日期：2010-01-01 00:00:00

abstract：:P53-binding protein 1 (53BP1) mediates DNA repair pathway choice and promotes checkpoint activation. Chromatin marks induced by DNA double-strand breaks and recognized by 53BP1 enable focal accumulation of this multifunctional repair factor at damaged chromatin. Here, we unveil an additional level of regulation of 53B...

journal_title：Nucleic acids research

authors： Salvador Moreno N,Liu J,Haas KM,Parker LL,Chakraborty C,Kron SJ,Hodges K,Miller LD,Langefeld C,Robinson PJ,Lelièvre SA,Vidi PA

更新日期：2019-04-08 00:00:00

abstract：:We have identified and sequenced two members of a chicken middle repetitive DNA sequence family. By reassociation kinetics, members of this family (termed CRl) are estimated to be present in 1500-7000 copies per chicken haploid genome. The first family member sequenced (CRlUla) is located approximately 2 kb upstream f...

journal_title：Nucleic acids research

authors： Stumph WE,Kristo P,Tsai MJ,O'Malley BW

更新日期：1981-10-24 00:00:00

abstract：:It has been shown that the monomethylated cap structure plays important roles in pre-mRNA splicing and nuclear export of RNA. As a candidate for the factor involved in these nuclear events we have previously purified an 80 kDa nuclear cap binding protein (NCBP) from a HeLa cell nuclear extract and isolated its full-le...

journal_title：Nucleic acids research

authors： Kataoka N,Ohno M,Moda I,Shimura Y

更新日期：1995-09-25 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：:In non-malignant RWPE-1 prostate epithelial cells signaling by the nuclear receptor Vitamin D Receptor (VDR, NR1I1) induces cell cycle arrest through targets including CDKN1A (encodes p21((waf1/cip1))). VDR dynamically induced individual histone modification patterns at three VDR binding sites (R1, 2, 3) on the CDKN1A...

journal_title：Nucleic acids research

authors： Thorne JL,Maguire O,Doig CL,Battaglia S,Fehr L,Sucheston LE,Heinaniemi M,O'Neill LP,McCabe CJ,Turner BM,Carlberg C,Campbell MJ

更新日期：2011-03-01 00:00:00

abstract：:Interferons (IFNs) are a family of multifunctional proteins involved in immune activation, regulation of cell growth and antiviral response. They exert their functions by induction of several IFN-stimulated genes, including IFN regulatory factors (IRFs), a family of transcriptional regulators. One of these factors, IR...

journal_title：Nucleic acids research

authors： Koenig Merediz SA,Schmidt M,Hoppe GJ,Alfken J,Meraro D,Levi BZ,Neubauer A,Wittig B

更新日期：2000-11-01 00:00:00

abstract：:A non-enzymic protein factor that increases the in vitro rate of synthesis by HeLa DNA polymerase alpha 15- to 30-fold with denatured DNA as template has been partially purified from the cytoplasmic fraction of HeLa cells. The stimulatory effect is highly specific for HeLa DNA polymerase alpha and for DNA templates th...

journal_title：Nucleic acids research

authors： Novak B,Baril EF

更新日期：1978-01-01 00:00:00

abstract：:The Escherichia coli AlkB protein (EcAlkB) is a DNA repair enzyme which reverses methylation damage such as 1-methyladenine (1-meA) and 3-methylcytosine (3-meC). The mammalian AlkB homologues ALKBH2 and ALKBH3 display EcAlkB-like repair activity in vitro, but their substrate specificities are different, and ALKBH2 is ...

journal_title：Nucleic acids research

authors： Meza TJ,Moen MN,Vågbø CB,Krokan HE,Klungland A,Grini PE,Falnes PØ

更新日期：2012-08-01 00:00:00

abstract：:MiRNAs are important regulators of gene expression and are frequently deregulated under pathologic conditions. They are highly stable in bodily fluids which makes them feasible candidates to become minimally invasive biomarkers. In fact, several studies already proposed circulating miRNA-based biomarkers for different...

journal_title：Nucleic acids research

authors： Aparicio-Puerta E,Jáspez D,Lebrón R,Koppers-Lalic D,Marchal JA,Hackenberg M

更新日期：2019-01-08 00:00:00

abstract：:Mammalian antibody switch regions (∼1500 bp) are composed of a series of closely neighboring G4-capable sequences. Whereas numerous structural and genome-wide analyses of roles for minimal G4s in transcriptional regulation have been reported, Long G4-capable regions (LG4s)-like those at antibody switch regions-remain ...

journal_title：Nucleic acids research

authors： Williams JD,Houserova D,Johnson BR,Dyniewski B,Berroyer A,French H,Barchie AA,Bilbrey DD,Demeis JD,Ghee KR,Hughes AG,Kreitz NW,McInnis CH,Pudner SC,Reeves MN,Stahly AN,Turcu A,Watters BC,Daly GT,Langley RJ,Gillesp

更新日期：2020-06-19 00:00:00

abstract：:The NusA protein is a universally conserved bacterial transcription elongation factor that binds RNA polymerase (RNAP). When functioning independently, NusA enhances intrinsic termination. Paradoxically, NusA stimulates the function of the N and Q antiterminator proteins of bacteriophage λ. The mechanistic basis for N...

journal_title：Nucleic acids research

authors： Wells CD,Deighan P,Brigham M,Hochschild A

更新日期：2016-06-20 00:00:00

abstract：:The DNA data bank of Japan (DDBJ, http://www.ddbj.nig.ac.jp) maintains a primary nucleotide sequence database and provides analytical resources for biological information to researchers. This database content is exchanged with the US National Center for Biotechnology Information (NCBI) and the European Bioinformatics ...

journal_title：Nucleic acids research

authors： Ogasawara O,Mashima J,Kodama Y,Kaminuma E,Nakamura Y,Okubo K,Takagi T

更新日期：2013-01-01 00:00:00

abstract：:The Genomes Online Database (GOLD) (https://gold.jgi.doe.gov) is a manually curated data management system that catalogs sequencing projects with associated metadata from around the world. In the current version of GOLD (v.6), all projects are organized based on a four level classification system in the form of a Stud...

journal_title：Nucleic acids research

authors： Mukherjee S,Stamatis D,Bertsch J,Ovchinnikova G,Verezemska O,Isbandi M,Thomas AD,Ali R,Sharma K,Kyrpides NC,Reddy TB

更新日期：2017-01-04 00:00:00

abstract：:Codon usage data has been compiled for 110 yeast genes. Cluster analysis on relative synonymous codon usage revealed two distinct groups of genes. One group corresponds to highly expressed genes, and has much more extreme synonymous codon preference. The pattern of codon usage observed is consistent with that expected...

journal_title：Nucleic acids research

authors： Sharp PM,Tuohy TM,Mosurski KR

更新日期：1986-07-11 00:00:00

abstract：:The presence of the C.C mispair in a defined duplex oligodeoxynucleotide enhanced its capacity to serve as a substrate for highly purified human DNA methyltransferase. Analysis of tritiated reaction products showed that the C.C mispair acted as a "methylation acceptor" in that it was itself rapidly methylated. The m5C...

journal_title：Nucleic acids research

authors： Smith SS,Hardy TA,Baker DJ

更新日期：1987-09-11 00:00:00

abstract：:Using a human interferon-alpha probe we have isolated recombinant phages containing murine interferon-alpha (Mu IFN-alpha) genes from a genomic library. One of these phages contained two complete Mu IFN-alpha genes and part of a third gene. The insert of a second phage held two IFN genes. This indicates that the Mu IF...

journal_title：Nucleic acids research

authors： Zwarthoff EC,Mooren AT,Trapman J

更新日期：1985-02-11 00:00:00

abstract：:The TransTerm database of termination codon contexts has been extended to include sense codon usage, and initiation codon contexts. The database was constructed from 23,721 coding sequences from 93 organisms. The database contains: a) the sequence around the termination codon (-10, +10); b) the sequence around the ini...

journal_title：Nucleic acids research

authors： Brown CM,Stockwell PA,Dalphin ME,Tate WP

更新日期：1994-09-01 00:00:00

abstract：:A tetradecanucleotide U-A-G-C(U-C-G)2G-G-C-Up corresponding to bases 21-34 of a nascent sequence of formylmethionyl tRNA of E. coli has been synthesized by the joining of two combinations of chemically synthesized oligonucleotides: 1) U-A-G-C + U-C-G-U-C-G + G-G-C-Up and 2) U-A-G-C + U-C-G-U + C-G-G-G-C-Up. In reactio...

journal_title：Nucleic acids research

authors： Ohtsuka E,Doi T,Uemura H,Taniyama Y,Ikehara M

更新日期：1980-09-11 00:00:00

abstract：:The possible role of LG-1, a Tetrahymena specific HMG protein found in the macronuclear chromatin (Hamana, K. and Iwai, K. (1979) J. Biochem. 86, 789-794), was examined in relation to the chromatin structure. The chromatin isolated from cells synchronized at different stages of the cell cycle contained about one molec...

journal_title：Nucleic acids research

authors： Hamana K,Zama M

更新日期：1980-11-25 00:00:00