Peripheral re-localization of constitutive heterochromatin advances its replication timing and impairs maintenance of silencing marks.

abstract：:We have used DNase I footprinting to examine the association kinetics of GA-, GT- and CT-containing oligonucleotides with the target sequence (GGA)5GG. (CCT)5CC. These reactions are slow yielding bimolecular association rate constants between 50 and 2000 M-1s-1. We find that GT-containing oligonucleotides bind much fa...

journal_title：Nucleic acids research

authors： Paes HM,Fox KR

更新日期：1997-08-15 00:00:00

abstract：:Gene expression patterns have been demonstrated to be highly variable between similar cell types, for example lab strains and wild strains of Saccharomyces cerevisiae cultured under identical growth conditions exhibit a wide range of expression differences. We have used a genome-wide approach to characterize transcrip...

journal_title：Nucleic acids research

authors： Llinás M,Bozdech Z,Wong ED,Adai AT,DeRisi JL

更新日期：2006-02-21 00:00:00

abstract：:HinP1I recognizes and cleaves the palindromic tetranucleotide sequence G downward arrowCGC in DNA. We report three structures of HinP1I-DNA complexes: in the presence of Ca(2+) (pre-reactive complex), in the absence of metal ion (binary complex) and in the presence of Mg(2+) (post-reactive complex). HinP1I forms a bac...

journal_title：Nucleic acids research

authors： Horton JR,Zhang X,Maunus R,Yang Z,Wilson GG,Roberts RJ,Cheng X

更新日期：2006-02-09 00:00:00

abstract：:The use of the ammonia deprotection step to introduce (15)N labels at specific exocyclic amino positions of adenine, cytosine, guanine or 2-aminopurine of oligodeoxynucleotides is described. ...

journal_title：Nucleic acids research

authors： Acedo M,Fàbrega C,Aviño A,Goodman M,Fagan P,Wemmer D,Eritja R

更新日期：1994-08-11 00:00:00

abstract：:Numerous eukaryotic genes are alternatively spliced. Recently, deep transcriptome sequencing has skyrocketed proportion of alternatively spliced genes; over 95% human multi-exon genes are alternatively spliced. One fundamental question is: are all these alternative splicing (AS) events functional? To look into this is...

journal_title：Nucleic acids research

authors： Wang M,Zhang P,Shu Y,Yuan F,Zhang Y,Zhou Y,Jiang M,Zhu Y,Hu L,Kong X,Zhang Z

更新日期：2014-12-16 00:00:00

abstract：:Phylogenetic analysis of Y-family DNA polymerases suggests that it can be subdivided into several discrete branches consisting of UmuC/DinB/Rev1/Rad30/Rad30A and Rad30B. The most diverse is the DinB family that is found in all three kingdoms of life. Searches of the complete genome of the crenarchaeon Sulfolobus solfa...

journal_title：Nucleic acids research

authors： Boudsocq F,Iwai S,Hanaoka F,Woodgate R

更新日期：2001-11-15 00:00:00

abstract：:Module identification is a frequently used approach for mining local structures with more significance in global networks. Recently, a wide variety of bilayer networks are emerging to characterize the more complex biological processes. In the light of special topological properties of bilayer networks and the accompan...

journal_title：Nucleic acids research

authors： Xu Y,Guo M,Liu X,Wang C,Liu Y,Liu G

更新日期：2016-11-16 00:00:00

abstract：:Two types of different repetitive DNA sequences called RepMP1 and RepMP2 were identified in the genome of Mycoplasma pneumoniae. The number of these repeated elements, their nucleotide sequence and their localization on a physical map of the M. pneumoniae genome were determined. The results show that RepMP1 appears at...

journal_title：Nucleic acids research

authors： Wenzel R,Herrmann R

更新日期：1988-09-12 00:00:00

abstract：:MCScan is an algorithm able to scan multiple genomes or subgenomes in order to identify putative homologous chromosomal regions, and align these regions using genes as anchors. The MCScanX toolkit implements an adjusted MCScan algorithm for detection of synteny and collinearity that extends the original software by in...

journal_title：Nucleic acids research

authors： Wang Y,Tang H,Debarry JD,Tan X,Li J,Wang X,Lee TH,Jin H,Marler B,Guo H,Kissinger JC,Paterson AH

更新日期：2012-04-01 00:00:00

abstract：:The growing application of gene expression profiling demands powerful yet user-friendly bioinformatics tools to support systems-level data understanding. NetworkAnalyst was first released in 2014 to address the key need for interpreting gene expression data within the context of protein-protein interaction (PPI) netwo...

journal_title：Nucleic acids research

authors： Zhou G,Soufan O,Ewald J,Hancock REW,Basu N,Xia J

更新日期：2019-07-02 00:00:00

abstract：:We have developed a simple method to measure RNA synthesis in real time. In this technique, transcription reactions are performed in the presence of molecular beacons that possess a 2'-O-methylribonucleotide backbone. These probes become fluorescent as they hybridize to nascent RNA during the course of synthesis. We f...

journal_title：Nucleic acids research

authors： Marras SA,Gold B,Kramer FR,Smith I,Tyagi S

更新日期：2004-05-20 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：:To locate the boundaries of the TATA element in the SV40 early promoter, point mutations have been constructed such as to cover the whole T + A-rich region of the replication origin. The effects of these mutations on the rate of transcription in vivo show that this region actually contains two TATA elements I and II, ...

journal_title：Nucleic acids research

authors： Pauly M,Treger M,Westhof E,Chambon P

更新日期：1992-03-11 00:00:00

abstract：:A number of regulatory nascent peptides have been shown to regulate gene expression by causing programmed ribosome stalling during translation. Nascent peptide emerges from the ribosome through the exit tunnel, and one-third of the way along which β-loop structures of ribosomal proteins uL4 and uL22 protrude into the ...

journal_title：Nucleic acids research

authors： Takamatsu S,Ohashi Y,Onoue N,Tajima Y,Imamichi T,Yonezawa S,Morimoto K,Onouchi H,Yamashita Y,Naito S

更新日期：2020-02-28 00:00:00

abstract：:The Mouse Genome Database (MGD: http://www.informatics.jax.org) is the primary community data resource for the laboratory mouse. It provides a highly integrated and highly curated system offering a comprehensive view of current knowledge about mouse genes, genetic markers and genomic features as well as the associatio...

journal_title：Nucleic acids research

authors： Blake JA,Eppig JT,Kadin JA,Richardson JE,Smith CL,Bult CJ,the Mouse Genome Database Group.

更新日期：2017-01-04 00:00:00

abstract：:The Phospho.ELM resource (http://phospho.elm.eu.org) is a relational database designed to store in vivo and in vitro phosphorylation data extracted from the scientific literature and phosphoproteomic analyses. The resource has been actively developed for more than 7 years and currently comprises 42,574 serine, threoni...

journal_title：Nucleic acids research

authors： Dinkel H,Chica C,Via A,Gould CM,Jensen LJ,Gibson TJ,Diella F

更新日期：2011-01-01 00:00:00

abstract：:Replacement of alpha-, beta- and gamma-phosphate groups in 2'-deoxynucleoside 5'-triphosphates (dNTP) with phosphonate groups yields a new set of dNTP mimics with potential biological and therapeutic applications. Here, we describe the synthesis of 15 new dNTPs modified at alpha-, beta- and gamma-phosphates containing...

journal_title：Nucleic acids research

authors： Alexandrova LA,Skoblov AY,Jasko MV,Victorova LS,Krayevsky AA

更新日期：1998-02-01 00:00:00

abstract：:Chromatin assembly factor 1 (CAF-1) is a histone H3-H4 chaperone that deposits newly synthesized histone (H3-H4)2 tetramers during replication-coupled nucleosome assembly. However, how CAF-1 functions in this process is not yet well understood. Here, we report the crystal structure of C terminus of Cac1 (Cac1C), a sub...

journal_title：Nucleic acids research

authors： Zhang K,Gao Y,Li J,Burgess R,Han J,Liang H,Zhang Z,Liu Y

更新日期：2016-06-20 00:00:00

abstract：:Toscana virus is an emerging bunyavirus in Mediterranean Europe where it accounts for 80% of pediatric meningitis cases during the summer. The negative-strand ribonucleic acid (RNA) genome of the virus is wrapped around the virally encoded nucleoprotein N to form the ribonucleoprotein complex (RNP). We determined crys...

journal_title：Nucleic acids research

authors： Olal D,Dick A,Woods VL Jr,Liu T,Li S,Devignot S,Weber F,Saphire EO,Daumke O

更新日期：2014-05-01 00:00:00

abstract：:The mRNA export complex TREX (TREX) is known to contain Aly, UAP56, Tex1 and the THO complex, among which UAP56 is required for TREX assembly. Here, we systematically investigated the role of each human TREX component in TREX assembly and its association with the mRNA. We found that Tex1 is essentially a subunit of th...

journal_title：Nucleic acids research

authors： Chi B,Wang Q,Wu G,Tan M,Wang L,Shi M,Chang X,Cheng H

更新日期：2013-01-01 00:00:00

abstract：:The human gene for plasminogen activator inhibitor type-1 (PAI-1) has been isolated and its promoter region characterized. PAI-1 regulation by glucocorticoids, transforming growth factor-beta (TGF-beta) and the phorbol ester PMA is shown to be exerted at the promoter level. A fragment spanning 805 nucleotides of the 5...

journal_title：Nucleic acids research

authors： Riccio A,Lund LR,Sartorio R,Lania A,Andreasen PA,Danø K,Blasi F

更新日期：1988-04-11 00:00:00

abstract：:It is believed that depending on the thermodynamic stability of the 5'-strand and the 3'-strand in the stem-loop structure of a precursor microRNA (pre-miRNA), cells preferentially select the less stable one (called the miRNA or guide strand) and destroy the other one (called the miRNA* or passenger strand). However, ...

journal_title：Nucleic acids research

authors： Ro S,Park C,Young D,Sanders KM,Yan W

更新日期：2007-01-01 00:00:00

abstract：:We have studied the regulation of DNA ligase I gene expression in UV-C irradiated human primary fibroblasts. An increase of approximately 6-fold both in DNA ligase I messenger and activity levels was observed 24 h after UV treatment, when nucleotide excision repair (NER) is no longer operating. DNA ligase I induction ...

journal_title：Nucleic acids research

authors： Montecucco A,Savini E,Biamonti G,Stefanini M,Focher F,Ciarrocchi G

更新日期：1995-03-25 00:00:00

abstract：:We show herein the transcription of a processed gene that originated from a spliced transcript. Recently, we isolated the human and murine homologues of the yeast chromatin protein, SPT4. The Supt4h gene is spliced normally from five exons encoded by chromosome 11. Here we show that a related sequence on chromosome 10...

journal_title：Nucleic acids research

authors： Chiang PW,Zhang R,Stubbs L,Zhang L,Zhu L,Kurnit DM

更新日期：1998-11-01 00:00:00

abstract：:Mitochondrial-DNA diseases have no effective treatments. Allotopic expression-synthesis of a wild-type version of the mutated protein in the nuclear-cytosolic compartment and its importation into mitochondria-has been proposed as a gene-therapy approach. Allotopic expression has been successfully demonstrated in yeast...

journal_title：Nucleic acids research

authors： Perales-Clemente E,Fernández-Silva P,Acín-Pérez R,Pérez-Martos A,Enríquez JA

更新日期：2011-01-01 00:00:00

abstract：:Nucleobase analogs 5-methylisocytosine ((Me)isoC) and isoguanine (isoG) form a non-natural base pair in duplex nucleic acids with base pairing specificity orthogonal to the natural nucleobase pairs. Sequencing reactions were conducted with oligodeoxyribonucleotides (ODNs) containing d(Me)isoC and disoG using modified ...

journal_title：Nucleic acids research

authors： Ahle JD,Barr S,Chin AM,Battersby TR

更新日期：2005-06-02 00:00:00

abstract：:Two DNA polymerases have been purified from the 105,000 x g supernatant of ungerminated wheat. The purification stages included: high speed centrifugation, salt fractionation, DEAE-cellulose chromatography, Sephadex G-150 filtration and phosphocellulose chromatography. Several properties of the two enzyme (called A an...

journal_title：Nucleic acids research

authors： Castroviejo M,Tarragó-Litvak L,Litvak S

更新日期：1975-11-01 00:00:00

abstract：:A new method which predicts internal exon sequences in human DNA has been developed. The method is based on a splice site prediction algorithm that uses the linear discriminant function to combine information about significant triplet frequencies of various functional parts of splice site regions and preferences of ol...

journal_title：Nucleic acids research

authors： Solovyev VV,Salamov AA,Lawrence CB

更新日期：1994-12-11 00:00:00

abstract：:Unmodified tRNA molecules are useful for many purposes in cell-free protein biosynthesis, but there is little information about how the lack of tRNA post-transcriptional modifications affects the coding specificity for synonymous codons. In the present study, we prepared an unmodified form of Escherichia coli tRNA1Ser...

journal_title：Nucleic acids research

authors： Takai K,Takaku H,Yokoyama S

更新日期：1996-08-01 00:00:00

abstract：:Affymetrix has recently developed whole-transcript GeneChips-'Gene' and 'Exon' arrays-which interrogate exons along the length of each gene. Although each probe on these arrays is intended to hybridize perfectly to only one transcriptional target, many probes match multiple transcripts located in different parts of th...

journal_title：Nucleic acids research

authors： Turro E,Lewin A,Rose A,Dallman MJ,Richardson S

更新日期：2010-01-01 00:00:00