Abstract：
:Denaturing gradient gel electrophoresis (DGGE) is based upon the different melting behaviors of DNA molecules in a chemical denaturant gradient according to their sequences. This technique has recently become a widespread tool to detect mutations. The introduction of a GC-clamp enables the detection of most single base differences between two DNA molecules. As a test system we have applied the polymerase chain reaction (PCR) in combination with DGGE to detect a number of mutations in the mouse H2Kb DNA sequence. A wide variety of spontaneous in vivo mutations of this haplotype have been reported in the C57BL/6J mouse strain and are clustered in the alpha 1 and alpha 2 domains. The combination of PCR and DGGE revealed almost all base changes present in the H2Kb mutants used. However, most of the PCR products of these mutants showed melting behavior which is not easily predicted. We suggest that in addition to current simple theory, which considers that the migration of a DNA molecule in a denaturing gradient depends primarily on its initial melting behavior, additional factors such as secondary structure in partially melted molecules may play a role and can be used to detect mutations.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Weber CK,Shaffer DJ,Sidman CLdoi
10.1093/nar/19.12.3331subject
Has Abstractpub_date
1991-06-25 00:00:00pages
3331-5issue
12eissn
0305-1048issn
1362-4962journal_volume
19pub_type
杂志文章abstract：:We report the extended database and data mining resources newly released in the H-Invitational Database (H-InvDB; http://www.h-invitational.jp/). H-InvDB is a comprehensive annotation resource of human genes and transcripts, and consists of two main views and six sub-databases. The latest release of H-InvDB (release 6...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp1020
更新日期：2010-01-01 00:00:00
abstract：:The emergence of massively parallel sequencing technology has revolutionized microbial profiling, allowing the unprecedented comparison of microbial diversity across time and space in a wide range of host-associated and environmental ecosystems. Although the high-throughput nature of such methods enables the detection...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt1070
更新日期：2013-12-01 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
pub_type： 杂志文章
doi：10.1093/nar/gki209
更新日期：2005-01-26 00:00:00
abstract：:The enterovirus 71 (EV71) 3Dpol is an RNA-dependent RNA polymerase (RdRP) that plays the central role in the viral genome replication, and is an important target in antiviral studies. Here, we report a crystal structure of EV71 3Dpol elongation complex (EC) at 1.8 Å resolution. The structure reveals that the 5'-end gu...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz1170
更新日期：2020-02-20 00:00:00
abstract：:As the largest group of MYB family transcription factors, R2R3-MYB proteins play essential roles during plant growth and development. However, the structural basis underlying how R2R3-MYBs recognize the target DNA remains elusive. Here, we report the crystal structure of Arabidopsis WEREWOLF (WER), an R2R3-MYB protein...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkz1081
更新日期：2020-01-10 00:00:00
abstract：:The higher order structure of the functionally important 530 loop in Escherichia coli 16S rRNA was studied in mutants with single base changes at position 517, which significantly impair translational fidelity. The 530 loop has been proposed to interact with the EF-Tu-GTP-aatRNA ternary complex during decoding. The re...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/23.17.3563
更新日期：1995-09-11 00:00:00
abstract：:Drosophila tissue culture cells have been important in the study of homologous promoters and more recently in the study of mammalian transcriptional factors such as CTF and SP1 which bind and stimulate transcription from transfected genes. In this paper we show that a Drosophila melanogaster haploid cell line (1182-4)...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.15.6205
更新日期：1989-08-11 00:00:00
abstract：:The availability of a draft human genome sequence and ability to monitor the transcription of thousands of genes with DNA microarrays has necessitated the need for new computational tools that can analyze cis-regulatory elements controlling genes that display similar expression patterns. We have developed a tool desig...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gnf120
更新日期：2002-11-01 00:00:00
abstract：:The synthetic DNA fragment (formula, see text) (corresponding to nucleotides 4299-4314 of the phi X DNA sequence) was cloned into either the AmpR gene or the KmR gene of plasmid pACYC 177. The DNA sequence of the KmR gene around the insertion site was determined by nucleotide sequence analysis of the pACYC 177 FnudII ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/9.14.3335
更新日期：1981-07-24 00:00:00
abstract：:A number of novel phosphate triester derivatives of the anti-cancer nucleoside analogue araC have been prepared by a rapid 2-step procedure, not necessitating prior sugar protection. Spectroscopic and lipophilicity data have been collected on these compounds. An in vitro assay indicated inhibition of thymidine incorpo...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.18.7195
更新日期：1989-09-25 00:00:00
abstract：:As a trial practical application, we have applied optimized microfabricated electrophoresis devices, combined with enzymatic mutation detection methods, to the determination of single nucleotide polymorphism (SNP) sites in the p53 suppressor gene. Using clinical samples, we have achieved robust assays with quality fac...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/28.9.e43
更新日期：2000-05-01 00:00:00
abstract：:A complete physical map of the spinach mitochondrial genome has been established. The entire sequence content of 327 kilobase pairs (kb) is postulated to occur as a single circular molecule. Two directly repeated elements of approximately 6 kb, located on this "master chromosome", are proposed to participate in an int...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.14.5651
更新日期：1986-07-25 00:00:00
abstract：:Transcription initiation complexes formed by bacterial RNA polymerases (RNAPs) exhibit dramatic species-specific differences in stability, leading to different strategies of transcription regulation. The molecular basis for this diversity is unclear. Promoter complexes formed by RNAP from Thermus aquaticus (Taq) are c...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks973
更新日期：2012-12-01 00:00:00
abstract：:The genes for mitoribosomal protein S12 (Mrps12) and mitochondrial seryl-tRNA ligase (Sarsm and Sars2) are oppositely transcribed from a conserved promoter region of <200 bp in both human and mouse. Using a dual reporter vector we identified an array of 4 CCAAT box elements required for efficient transcription of the ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl1037
更新日期：2007-01-01 00:00:00
abstract：:The yeast retrotransposon Ty encodes proteins that assemble into virus-like particles (Ty-VLPs) which can be readily purified. We have recently shown that expression of the pl protein encoded by the TYA gene of Ty is sufficient for particle formation. In this paper we show that when a heterologous coding sequence, hum...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.18.7571
更新日期：1987-09-25 00:00:00
abstract：:A new class of synthetic DNA duplexes containing repeating oligonucleotide sequences, double-helical concatemers, is characterized. The UV-absorption and circular dichroism of a concatemer formed in self-association of d(T-G-C-A-C-A-T-G) have been studied. The thermodynamical parameters of complex formation are the fo...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/8.11.2413
更新日期：1980-06-11 00:00:00
abstract：:DNA curvature plays a well-characterized role in many transcriptional regulation mechanisms. We present evidence for the conservation of curvature signals in putative regulatory regions of several archaeal and eubacterial genomes. Genes with highly curved upstream regions were identified in orthologous groups, based o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkg882
更新日期：2003-12-01 00:00:00
abstract：:The DNA Data Bank of Japan (DDBJ) (http://www.ddbj.nig.ac.jp) has been providing public data services for thirty years (since 1987). We are collecting nucleotide sequence data from researchers as a member of the International Nucleotide Sequence Database Collaboration (INSDC, http://www.insdc.org), in collaboration wi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw1001
更新日期：2017-01-04 00:00:00
abstract：:Microarrays are invaluable high-throughput tools used to snapshot the gene expression profiles of cells and tissues. Among the most basic and fundamental questions asked of microarray data is whether individual genes are significantly activated or repressed by a particular stimulus. We have previously presented two Ba...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki443
更新日期：2005-07-01 00:00:00
abstract：:The accuracy of a homology model based on the structure of a distant relative or other topologically equivalent protein is primarily limited by the quality of the alignment. Here we describe a systematic approach for sequence-to-structure alignment, called 'K*Sync', in which alignments are generated by dynamic program...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl480
更新日期：2006-01-01 00:00:00
abstract：:Mouse DNA contains two equally abundant, homologous subfamilies of MspI 3.6 and 5 kb repeated fragments. The first subfamily corresponds to the previously described (1) Bam 4 kb repeats, the second one to Bam repeated fragments of higher molecular weight. These subfamilies account for the vast majority of long Bam rep...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/12.3.1593
更新日期：1984-02-10 00:00:00
abstract：:siRNAs confer sequence specific and robust silencing of mRNA. By virtue of these properties, siRNAs have become therapeutic candidates for disease intervention. However, their use as therapeutic agents can be hampered by unintended off-target effects by either or both strands of the siRNA duplex. We report here that u...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq961
更新日期：2011-03-01 00:00:00
abstract：:We have developed an improved and rapid genomic engineering procedure for the construction of custom-designed microorganisms. This method, which can be performed in 2 days, permits restructuring of the Escherichia coli genome via markerless deletion of selected genomic regions. The deletion process was mediated by a s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkn359
更新日期：2008-08-01 00:00:00
abstract：:In the battle against viruses, antiviral peptides (AVPs) had demonstrated the immense potential. Presently, more than 15 peptide-based drugs are in various stages of clinical trials. Emerging and re-emerging viruses further emphasize the efforts to accelerate antiviral drug discovery efforts. Despite, huge importance ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks450
更新日期：2012-07-01 00:00:00
abstract：:The specific function of RNA molecules frequently resides in their seemingly unstructured loop regions. We performed a systematic analysis of RNA loops extracted from experimentally determined three-dimensional structures of RNA molecules. A comprehensive loop-structure data set was created and organized into distinct...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp1010
更新日期：2010-01-01 00:00:00
abstract：:In vivo transcripts of the L (4.5 kb) and M (1.9 kb) dsRNA plasmids were examined in type I killers of Saccharomyces cerevisiae. Transcripts for both plasmids include full-length (l,m) and partial-length (la,ma) single-stranded species. Both L-dsRNA transcripts (l,la) have in vitro mRNA activity for L-P1, previously s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/11.4.1077
更新日期：1983-02-25 00:00:00
abstract：:We have developed an information repository named SpliceInfo to collect the occurrences of the four major alternative-splicing (AS) modes in human genome; these include exon skipping, 5'-alternative splicing, 3'-alternative splicing and intron retention. The dataset is derived by comparing the nucleotide and protein s...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki129
更新日期：2005-01-01 00:00:00
abstract：:The International Committee on Taxonomy of Viruses (ICTV) is charged with the task of developing, refining, and maintaining a universal virus taxonomy. This task encompasses the classification of virus species and higher-level taxa according to the genetic and biological properties of their members; naming virus taxa;...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx932
更新日期：2018-01-04 00:00:00
abstract：:The crystal structure of the RNA/DNA hybrid r(GAAGAGAAGC). d(GCTTCTCTTC) has been solved and refined at 2.5 A resolution. The refinement procedure converged at R = 0.181 for all reflections in the range 20.0-2.5 A. In the crystal, the RNA/DNA hybrid duplex has an A' conformation with all but one of the nucleotide suga...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/27.2.555
更新日期：1999-01-15 00:00:00
abstract：:The engineering of new enzymes that efficiently and specifically modify DNA sequences is necessary for the development of enhanced gene therapies and genetic studies. To address this need, we developed a robust strategy for evolving site-specific recombinases with novel substrate specificities. In this system, recombi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq125
更新日期：2010-07-01 00:00:00
