Safeguarding genome integrity: the checkpoint kinases ATR, CHK1 and WEE1 restrain CDK activity during normal DNA replication.

abstract：:The chromatin-remodelling complex B-WICH, comprised of William syndrome transcription factor, the ATPase SNF2h and nuclear myosin, specifically activates RNA polymerase III transcription of the 5S rRNA and 7SL genes. However, the underlying mechanism is unknown. Using high-resolution MN walking we demonstrate here tha...

journal_title：Nucleic acids research

authors： Sadeghifar F,Böhm S,Vintermist A,Östlund Farrants AK

更新日期：2015-05-19 00:00:00

abstract：:Membraneless organelles (MOs) are dynamic liquid condensates that host a variety of specific cellular processes, such as ribosome biogenesis or RNA degradation. MOs form through liquid-liquid phase separation (LLPS), a process that relies on multivalent weak interactions of the constituent proteins and other macromole...

journal_title：Nucleic acids research

authors： Mészáros B,Erdős G,Szabó B,Schád É,Tantos Á,Abukhairan R,Horváth T,Murvai N,Kovács OP,Kovács M,Tosatto SCE,Tompa P,Dosztányi Z,Pancsa R

更新日期：2020-01-08 00:00:00

abstract：:Homozygosity for a natural deletion variant of the HIV-coreceptor molecule CCR5, CCR5Δ32, confers resistance toward HIV infection. Allogeneic stem cell transplantation from a CCR5Δ32-homozygous donor has resulted in the first cure from HIV ('Berlin patient'). Based thereon, genetic disruption of CCR5 using designer nu...

journal_title：Nucleic acids research

authors： Mock U,Machowicz R,Hauber I,Horn S,Abramowski P,Berdien B,Hauber J,Fehse B

更新日期：2015-06-23 00:00:00

abstract：:Small inverted repeats (small palindromes) on plasmids have been shown to mediate a recombinational rearrangement event in Escherichia coli leading to the formation of inverted dimers (giant palindromes). This recombinational rearrangement event is efficient and independent of RecA and RecBCD. In this report, we propo...

journal_title：Nucleic acids research

authors： Lin CT,Lyu YL,Liu LF

更新日期：1997-08-01 00:00:00

abstract：:The Superimposé webserver performs structural similarity searches with a preference towards 3D structure-based methods. Similarities can be detected between small molecules (e.g. drugs), parts of large structures (e.g. binding sites of proteins) and entire proteins. For this purpose, a number of algorithms were implem...

journal_title：Nucleic acids research

authors： Bauer RA,Bourne PE,Formella A,Frömmel C,Gille C,Goede A,Guerler A,Hoppe A,Knapp EW,Pöschel T,Wittig B,Ziegler V,Preissner R

更新日期：2008-07-01 00:00:00

abstract：:Long non-coding RNAs (lncRNAs) play critical roles in diverse cellular processes; however, their involvement in many critical aspects of the immune response including the interferon (IFN) response remains poorly understood. To address this gap, we compared the global gene expression pattern of primary human hepatocyte...

journal_title：Nucleic acids research

authors： Kambara H,Niazi F,Kostadinova L,Moonka DK,Siegel CT,Post AB,Carnero E,Barriocanal M,Fortes P,Anthony DD,Valadkhan S

更新日期：2014-01-01 00:00:00

abstract：:A mutation in a gene dicA of Escherichia coli leads to temperature-sensitive cell division, by allowing expression of a nearby division inhibition gene dicB (1). We have now established the sequence of the DicA region and identified DicA as a 15.5 KD protein. A second gene dicC transcribed divergently from dicA and co...

journal_title：Nucleic acids research

authors： Béjar S,Cam K,Bouché JP

更新日期：1986-09-11 00:00:00

abstract：:The nuclear receptor vitamin D receptor (VDR) is known to associate with two vitamin D response element (VDRE) containing chromatin regions of the insulin-like growth factor binding protein 3 (IGFBP3) gene. In non-malignant MCF-10A human mammary cells, we show that the natural VDR ligand 1α,25-dihydroxyvitamin D(3) (1...

journal_title：Nucleic acids research

authors： Malinen M,Ryynänen J,Heinäniemi M,Väisänen S,Carlberg C

更新日期：2011-01-01 00:00:00

abstract：:The avian retrovirus pp32 DNA endonuclease prefers to nick supercoiled DNA containing long terminal repeat (LTR) circle junction sequences at one or the other of two sites, each which mapped two nucleotides back from the circle junction. The sequence at the sites of nicking was (sequence: see text) where increases ind...

journal_title：Nucleic acids research

authors： Grandgenett DP,Vora AC

更新日期：1985-09-11 00:00:00

abstract：:The spatio-temporal organization of chromatin in the eukaryotic cell nucleus is of vital importance for transcription, DNA replication and genome maintenance. Each of these activities is tightly regulated in both time and space. While we have a good understanding of chromatin organization in space, for example in fixe...

journal_title：Nucleic acids research

authors： Shaban HA,Seeber A

更新日期：2020-04-17 00:00:00

abstract：:RNase D was recently reported as a new enzymatic activity associated with HIV-1 reverse transcriptase (RT), cleaving RNA at two positions within the double-stranded region of the tRNA primer-viral RNA template complex (Ben-Artzi et al., Proc. Natl. Acad. Sci. USA 89 (1992) 927-931). This would make RNase D a fourth di...

journal_title：Nucleic acids research

authors： Hostomsky Z,Hudson GO,Rahmati S,Hostomska Z

更新日期：1992-11-11 00:00:00

abstract：:We have exploited properties of photosensitizers to study an aspect of the packing of chromatin in the cell nucleus. The fluorescent photosensitizers mesotetra(3-hydroxyphenyl) porphyrin and Photofrin II were both localized in the nuclear membrane and other membrane structures, but could not be found inside the nuclei...

journal_title：Nucleic acids research

authors： Kvam E,Stokke T,Moan J,Steen HB

更新日期：1992-12-25 00:00:00

abstract：:A complete nucleotide sequence of human aldolase B mRNA was determined with a recombinant cDNA (pHABL120-3). The cDNA insert was composed of 1,652 bases excluding poly(A) tail and the sequence was consistent with the previous results reported by others. However, S1 nuclease mapping and subsequent genomic analysis allo...

journal_title：Nucleic acids research

authors： Sakakibara M,Mukai T,Yatsuki H,Hori K

更新日期：1985-07-25 00:00:00

abstract：:JSNP is a repository of Japanese Single Nucleotide Polymorphism (SNP) data, begun in 2000 and developed through the Prime Minister's Millennium Project. The aim of this undertaking is to identify and collate up to 150 000 SNPs from the Japanese population, located in genes or in adjacent regions that might influence t...

journal_title：Nucleic acids research

authors： Hirakawa M,Tanaka T,Hashimoto Y,Kuroda M,Takagi T,Nakamura Y

更新日期：2002-01-01 00:00:00

abstract：:We report a novel system for efficient and specific targeted delivery of large nucleic acids to and into cells. Plasmid DNA and core histones were assembled to chromatin by salt gradient dialysis and subsequently connected to bispecific antibody derivatives (bsAbs) via a nucleic acid binding peptide bridge. The result...

journal_title：Nucleic acids research

authors： Killian T,Buntz A,Herlet T,Seul H,Mundigl O,Längst G,Brinkmann U

更新日期：2019-06-04 00:00:00

abstract：:We previously reported the isolation of PRP28, a gene in Saccharomyces cerevisiae whose activity is required for the first step of nuclear mRNA splicing in vivo. Sequence analysis revealed that PRP28 is included in the 'DEAD-box' gene family, members of which are thought to function as ATP-dependent RNA helicases. Gen...

journal_title：Nucleic acids research

authors： Strauss EJ,Guthrie C

更新日期：1994-08-11 00:00:00

abstract：:The tumor suppressor p53 is a sequence-specific transcription factor, which regulates the expression of target genes involved in different stress responses. To understand p53's essential transcriptional functions, unbiased analysis of its DNA-binding repertoire is pivotal. In a genome-wide tiling ChIP-on-chip approach...

journal_title：Nucleic acids research

authors： Smeenk L,van Heeringen SJ,Koeppel M,van Driel MA,Bartels SJ,Akkers RC,Denissov S,Stunnenberg HG,Lohrum M

更新日期：2008-06-01 00:00:00

abstract：:The dicistrovirus intergenic internal ribosome entry site (IGR IRES) directly recruits the ribosome and initiates translation using a non-AUG codon. A subset of IGR IRESs initiates translation in either of two overlapping open reading frames (ORFs), resulting in expression of the 0 frame viral structural polyprotein a...

journal_title：Nucleic acids research

authors： Ren Q,Au HH,Wang QS,Lee S,Jan E

更新日期：2014-08-01 00:00:00

abstract：:The G- and U-specific reagent, carbodiimide was used to probe the solution structure of aminoacylated yeast phenylalanine tRNA. Both quantitative and qualitative changes in modification were observed when the modification patterns of tRNA-CCA(3'OH), tRNA-CCA(3'NH2) and phe-tRNA-CCA(3'NH2) were compared. Five nucleotid...

journal_title：Nucleic acids research

authors： Fritzinger DC,Fournier MJ

更新日期：1982-04-10 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：:In HIV-1 infection, Tat acts at least in part to control transcriptional elongation by overcoming premature transcriptional termination. In some other genes this process is governed by DNA elements called attenuators in concert with cellular transcription factors. To understand the action of Tat more fully and explore...

journal_title：Nucleic acids research

authors： Greenberg ME,Mathews MB

更新日期：1997-12-15 00:00:00

abstract：:Several plasmids which direct the expression of human interferon-gamma (IFN-gamma) cDNA in the yeast Saccharomyces cerevisiae under the transcriptional control of the 3-phosphoglycerate kinase (PGK) promoter have been constructed. Up to 25 x 10(6) units per liter culture of biologically active IFN-gamma are synthesize...

journal_title：Nucleic acids research

authors： Derynck R,Singh A,Goeddel DV

更新日期：1983-03-25 00:00:00

abstract：:Orthology is a widely used concept in comparative and evolutionary genomics. In addition to prokaryotic orthology, delineating eukaryotic orthology has provided insight into the evolution of higher organisms. Indeed, many eukaryotic ortholog databases have been established for this purpose. However, unlike prokaryotes...

journal_title：Nucleic acids research

authors： Ho MR,Jang WJ,Chen CH,Ch'ang LY,Lin WC

更新日期：2008-06-01 00:00:00

abstract：:SIRT6 is critical for activating transcription of Nuclear factor (erythroid-derived 2)-like 2 (NRF2) responsive genes during oxidative stress. However, while the mechanism of SIRT6-mediated silencing is well understood, the mechanism of SIRT6-mediated transcriptional activation is unknown. Here, we employed SIRT6 sepa...

journal_title：Nucleic acids research

authors： Rezazadeh S,Yang D,Tombline G,Simon M,Regan SP,Seluanov A,Gorbunova V

更新日期：2019-09-05 00:00:00

abstract：:We have determined the nucleotide sequence of the major species of E. coli tRNASer and of a minor species having the same GGA anticodon. These two tRNAs should recognize the UCC and UCU codons, the most widely used codons for serine in the highly expressed genes of E. coli. The two sequences differ in only one positio...

journal_title：Nucleic acids research

authors： Grosjean H,Nicoghosian K,Haumont E,Söll D,Cedergren R

更新日期：1985-08-12 00:00:00

abstract：:The Protein Data Bank in Europe (PDBe, pdbe.org) is actively engaged in the deposition, annotation, remediation, enrichment and dissemination of macromolecular structure data. This paper describes new developments and improvements at PDBe addressing three challenging areas: data enrichment, data dissemination and func...

journal_title：Nucleic acids research

authors： Mir S,Alhroub Y,Anyango S,Armstrong DR,Berrisford JM,Clark AR,Conroy MJ,Dana JM,Deshpande M,Gupta D,Gutmanas A,Haslam P,Mak L,Mukhopadhyay A,Nadzirin N,Paysan-Lafosse T,Sehnal D,Sen S,Smart OS,Varadi M,Kleywegt GJ

更新日期：2018-01-04 00:00:00

abstract：:The 'regions' method for multisequence alignment used in the previously reported program MALIGN has been generalized to include recursive refinement so that unaligned portions between two regions at the current level of resolution can be handled with increased resolution. Additionally, there is incorporated a limiting...

journal_title：Nucleic acids research

authors： Martinez HM

更新日期：1988-03-11 00:00:00

abstract：:We have analyzed multiple recombinant DNA clones containing ribosomal RNA repeat units of the silkmoth, Bombyx mori. In combination with genomic DNA blots, analysis of these clones indicated that the rDNA repeat of B. mori is 10.8 kilobase pair in length and tandemly repeated in the genome, as reported by Manning et a...

journal_title：Nucleic acids research

authors： Lecanidou R,Eickbush TH,Kafatos FC

更新日期：1984-06-11 00:00:00

abstract：:DNA-PKcs and Ku are essential components of the complex that catalyzes non-homologous end joining (NHEJ) of DNA double-strand breaks (DSBs). Ku, a heterodimeric protein, binds to DNA ends and facilitates recruitment of the catalytic subunit, DNA-PKcs. We have investigated the effect of DNA strand orientation and seque...

journal_title：Nucleic acids research

authors： Pawelczak KS,Andrews BJ,Turchi JJ

更新日期：2005-01-07 00:00:00

abstract：:Full-length cDNA of the 6.3 kb turnip yellow mosaic virus (TYMV) genome was placed between a T7 promoter and a unique Hind III site. In vitro transcription of Hind III-linearized DNA of clone pTYMC yielded full-length RNA transcripts. In inoculations of Chinese cabbage protoplasts and plants, capped transcripts and vi...

journal_title：Nucleic acids research

authors： Weiland JJ,Dreher TW

更新日期：1989-06-26 00:00:00