Glycosyl conformational and inductive effects on the acid catalysed hydrolysis of purine nucleosides.

abstract：:The resonance Raman spectrum of native DNA has been obtained using excitation at 257 nm. In a first part, the spectral lines are assigned to the different nucleotide bases which provide the resonance effect. In a second part, the interactions of DNA with basic peptides (Arginine Methylester, Lysine Methylester, Arginy...

journal_title：Nucleic acids research

authors： Laigle A,Chinsky L,Turpin PY

更新日期：1982-03-11 00:00:00

abstract：:The mutation patterns at Cas9 targeted sites contain unique information regarding the nuclease activity and repair mechanisms in mammalian cells. However, analytical framework for extracting such information are lacking. Here, we present a novel computational platform called Rational InDel Meta-Analysis (RIMA) that en...

journal_title：Nucleic acids research

authors： Taheri-Ghahfarokhi A,Taylor BJM,Nitsch R,Lundin A,Cavallo AL,Madeyski-Bengtson K,Karlsson F,Clausen M,Hicks R,Mayr LM,Bohlooly-Y M,Maresca M

更新日期：2018-09-19 00:00:00

abstract：:The ability of the tumor suppressor protein, p53, to recognize certain types of DNA lesions may represent one of the mechanisms by which this protein modulates cellular response to DNA damage. p53 DNA binding properties are regulated by several factors, such as post-translational modifications including phosphorylatio...

journal_title：Nucleic acids research

authors： Subramanian D,Griffith JD

更新日期：2002-06-01 00:00:00

abstract：:The unsymmetrical cyanine dye thiazole orange homodimer (TOTO) binds to single-stranded DNA (ssDNA, M13mp18 ssDNA) to form a fluorescent complex that is stable under the standard conditions of electrophoresis. The stability of this complex is indistinguishable from that of the corresponding complex of TOTO with double...

journal_title：Nucleic acids research

authors： Rye HS,Glazer AN

更新日期：1995-04-11 00:00:00

abstract：:Live-cell measurement of protein binding to chromatin allows probing cellular biochemistry in physiological conditions, which are difficult to mimic in vitro. However, different studies have yielded widely discrepant predictions, and so it remains uncertain how to make the measurements accurately. To establish a bench...

journal_title：Nucleic acids research

authors： Mazza D,Abernathy A,Golob N,Morisaki T,McNally JG

更新日期：2012-08-01 00:00:00

abstract：:Alternative splicing (AS) of pre-mRNAs is an important regulatory mechanism shaping the transcriptome. In plants, only few RNA-binding proteins are known to affect AS. Here, we show that the glycine-rich RNA-binding protein AtGRP7 influences AS in Arabidopsis thaliana. Using a high-resolution RT-PCR-based AS panel, we...

journal_title：Nucleic acids research

authors： Streitner C,Köster T,Simpson CG,Shaw P,Danisman S,Brown JW,Staiger D

更新日期：2012-12-01 00:00:00

abstract：:A mathematical model and a computer simulation were used to study PCR specificity. The model describes the occurrences of non-targeted PCR products formed through random primer-template interactions. The PCR simulation scans DNA sequence databases with primers pairs. According to the model prediction, PCR with complex...

journal_title：Nucleic acids research

authors： Rubin E,Levy AA

更新日期：1996-09-15 00:00:00

abstract：:RNA interference represents a potent intervention for cancer treatment but requires a robust delivery agent for transporting gene-modulating molecules, such as small interfering RNAs (siRNAs). Although numerous molecular approaches for siRNA delivery are adequate in vitro, delivery to therapeutic targets in vivo is li...

journal_title：Nucleic acids research

authors： Alonso-Valenteen F,Pacheco S,Srinivas D,Rentsendorj A,Chu D,Lubow J,Sims J,Miao T,Mikhael S,Hwang JY,Abrol R,Medina Kauwe LK

更新日期：2019-12-02 00:00:00

abstract：:One of the obstacles hindering a better understanding of cancer is its heterogeneity. However, computational approaches to model cancer heterogeneity have lagged behind. To bridge this gap, we have developed a new probabilistic approach that models individual cancer cases as mixtures of subtypes. Our approach can be s...

journal_title：Nucleic acids research

authors： Cho DY,Przytycka TM

更新日期：2013-09-01 00:00:00

abstract：:The effect of temperature and primer concentration on oligonucleotide-primed transcription has been studied using the separated strands of a well-defined natural DNA as template. Results were similar to those obtained in the homopolymer-directed model systems. At high temperature and excess primer concentration mainly...

journal_title：Nucleic acids research

authors： Van Kreijl CF,Beelen RH,Borst P

更新日期：1977-02-01 00:00:00

abstract：:The design of a family shuffling strategy (CLERY: Combinatorial Libraries Enhanced by Recombination in Yeast) associating PCR-based and in vivo recombination and expression in yeast is described. This strategy was tested using human cytochrome P450 CYP1A1 and CYP1A2 as templates, which share 74% nucleotide sequence id...

journal_title：Nucleic acids research

authors： Abécassis V,Pompon D,Truan G

更新日期：2000-10-15 00:00:00

abstract：:Transcriptional co-activator LEDGF/p75 is the major cellular interactor of HIV-1 integrase (IN), critical to efficient viral replication. In this work, a series of INs from the Betaretrovirus, Gammaretrovirus, Deltaretrovirus, Spumavirus and Lentivirus retroviral genera were tested for interaction with the host factor...

journal_title：Nucleic acids research

authors： Cherepanov P

更新日期：2007-01-01 00:00:00

abstract：:Nucleosomes released from oviduct nuclei during brief micrococcal nuclease digestions are enriched in transcribed sequences (bloom K.S. and Anderson, J.N. (1978) Cell, 15, 141-150). Such nucleosomes released into this 1Sf supernatant fraction are enriched in proteins HMG14, 17 and a third lower molecular weight protei...

journal_title：Nucleic acids research

authors： Goodwin GH,Wright CA,Johns EW

更新日期：1981-06-25 00:00:00

abstract：:A vast amount of research on the regulation of gene expression has relied on plasmid reporter assays. In this study, we show that plasmids widely used for this purpose constitutively produce substantial amounts of RNA from a TATA-containing cryptic promoter within the origin of replication. Readthrough of these RNAs i...

journal_title：Nucleic acids research

authors： Lemp NA,Hiraoka K,Kasahara N,Logg CR

更新日期：2012-08-01 00:00:00

abstract：:With the development of High-Throughput Sequencing (HTS) thousands of human genomes have now been sequenced. Whenever different studies analyze the same genome they usually agree on the amount of single-nucleotide polymorphisms, but differ dramatically on the number of insertion and deletion variants (indels). Further...

journal_title：Nucleic acids research

authors： Jiang Y,Turinsky AL,Brudno M

更新日期：2015-09-03 00:00:00

abstract：:High density oligonucleotide array technology is widely used in many areas of biomedical research for quantitative and highly parallel measurements of gene expression. Affymetrix GeneChip arrays are the most popular. In this technology each gene is typically represented by a set of 11-20 pairs of probes. In order to o...

journal_title：Nucleic acids research

authors： Irizarry RA,Bolstad BM,Collin F,Cope LM,Hobbs B,Speed TP

更新日期：2003-02-15 00:00:00

abstract：:A synthetic gene for somatomedin C, a human growth factor, has been assembled by a single ligation of 23 oligodeoxyribonucleotides, which were chemically synthesized by an improved solid phase phosphotriester method. ...

journal_title：Nucleic acids research

authors： Sproat BS,Gait MJ

更新日期：1985-04-25 00:00:00

abstract：:We have determined the DNA sequence surrounding the transcription terminator following rpoC, the gene that codes for the beta' subunit of RNA polymerase in E. coli K12. The 2044 bp sequence obtained contains the distal 335 codons of rpoC followed by a 212 bp non-coding region and a second open reading frame (ORFa) of ...

journal_title：Nucleic acids research

authors： Squires C,Krainer A,Barry G,Shen WF,Squires CL

更新日期：1981-12-21 00:00:00

abstract：:Well defined biomacromolecular patterns such as binding sites, catalytic sites, specific protein or nucleic acid sequences, etc. precisely modulate many important biological phenomena. We introduce PatternQuery, a web-based application designed for detection and fast extraction of such patterns. The application uses a...

journal_title：Nucleic acids research

authors： Sehnal D,Pravda L,Svobodová Vařeková R,Ionescu CM,Koča J

更新日期：2015-07-01 00:00:00

abstract：:Numerous potential ligand-binding sites are available today, along with hundreds of thousands of known binding sites observed in the PDB. Exhaustive similarity search for such vastly numerous binding site pairs is useful to predict protein functions and to enable rapid screening of target proteins for drug design. Exi...

journal_title：Nucleic acids research

authors： Ito J,Tabei Y,Shimizu K,Tsuda K,Tomii K

更新日期：2012-01-01 00:00:00

abstract：:Genome length complementary DNA (cDNA) transcripts were synthesized in vitro by using purified virions of a cloned isolate of mouse sarcoma virus (MSV Clone 124). The cDNA transcripts were converted to double-stranded form by utilizing DNase-digested calf thymus DNA primers and E. coli DNA polymerase I. Restriction en...

journal_title：Nucleic acids research

authors： Verma IM

更新日期：1979-01-01 00:00:00

abstract：:Allele-specific DNA methylation, histone acetylation and histone methylation are recognized as epigenetic characteristics of imprinted genes and imprinting centers (ICs). These epigenetic modifications are also used to regulate tissue-specific gene expression. Epigenetic differences between alleles can be significant ...

journal_title：Nucleic acids research

authors： Lau JC,Hanel ML,Wevrick R

更新日期：2004-06-24 00:00:00

abstract：:Cdc13 is an essential protein from Saccharomyces cerevisiae that caps telomeres by protecting the C-rich telomeric DNA strand from degradation and facilitates telomeric DNA replication by telomerase. In vitro, Cdc13 binds TG-rich single-stranded telomeric DNA with high affinity and specificity. A previously identified...

journal_title：Nucleic acids research

authors： Anderson EM,Halsey WA,Wuttke DS

更新日期：2002-10-01 00:00:00

abstract：:Infection of cultured cells with herpes simplex virus (HSV) results in the transcriptional induction of a small number of cellular genes. Although the majority of such genes are dependent upon viral protein synthesis for their induction, a small minority are not. These genes are induced by events occurring prior to th...

journal_title：Nucleic acids research

authors： Kemp LM,Preston CM,Preston VG,Latchman DS

更新日期：1986-12-09 00:00:00

abstract：:A role for BRCA1 in the direct and indirect regulation of transcription is well established. However, a comprehensive view of the degree to which BRCA1 impacts transcriptional regulation on a genome-wide level has not been defined. We performed genome-wide expression profiling and ChIP-chip analysis, comparison of whi...

journal_title：Nucleic acids research

authors： Gorski JJ,Savage KI,Mulligan JM,McDade SS,Blayney JK,Ge Z,Harkin DP

更新日期：2011-12-01 00:00:00

abstract：:Helicase loading at a DNA replication origin often requires the dynamic interactions between the DNA helicase and an accessory protein. In E. coli, the DNA helicase is DnaB and DnaC is its loading partner. We used the method of hydrogen/deuterium exchange mass spectrometry to address the importance of DnaB-DnaC comple...

journal_title：Nucleic acids research

authors： Chodavarapu S,Jones AD,Feig M,Kaguni JM

更新日期：2016-01-08 00:00:00

abstract：:A novel expression system was established that allows expression and propagation of the human hepatitis B virus (HBV) genome in cultured animal cells. An overlength HBV genome encoding the viral pregenomic RNA was put under transcriptional control of the human metallothionein IIA promoter thereby replacing the endogen...

journal_title：Nucleic acids research

authors： Junker M,Galle P,Schaller H

更新日期：1987-12-23 00:00:00

abstract：:A growing body of evidence suggests that siRNA could generate off-target effects through different mechanisms. However, the full impact of off-target gene regulation on phenotypic induction and accordingly on data interpretation in the context of large-scale siRNA library screen has not been reported. Here we report o...

journal_title：Nucleic acids research

authors： Lin X,Ruan X,Anderson MG,McDowell JA,Kroeger PE,Fesik SW,Shen Y

更新日期：2005-08-09 00:00:00

abstract：:ComplexContact (http://raptorx2.uchicago.edu/ComplexContact/) is a web server for sequence-based interfacial residue-residue contact prediction of a putative protein complex. Interfacial residue-residue contacts are critical for understanding how proteins form complex and interact at residue level. When receiving a pa...

journal_title：Nucleic acids research

authors： Zeng H,Wang S,Zhou T,Zhao F,Li X,Wu Q,Xu J

更新日期：2018-07-02 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