Analysis of complex genetic systems by ARMS-SSCP: application to HLA genotyping.

abstract：:The integrase (IN) protein of human immunodeficiency virus type 1 (HIV-1) catalyzes site-specific cleavage of 2 bases from the viral long terminal repeat (LTR) sequence yet it binds DNA with little DNA sequence specificity. We have previously demonstrated that the C-terminal half of IN (amino acids 154-288) possesses ...

journal_title：Nucleic acids research

authors： Woerner AM,Marcus-Sekura CJ

更新日期：1993-07-25 00:00:00

abstract：:Ten transgenic mouse lines harboring the -346/-103 fragment of the rat insulin I enhancer linked to a heterologous promoter and a reporter gene (Eins-Ptk-CAT construct) were produced. Expression of the hybrid transgene was essentially observed in pancreas and to a lesser extent in brain. These results indicate that th...

journal_title：Nucleic acids research

authors： Dandoy-Dron F,Monthioux E,Jami J,Bucchini D

更新日期：1991-09-25 00:00:00

abstract：:We present a www server for AUGUSTUS, a novel software program for ab initio gene prediction in eukaryotic genomic sequences. Our method is based on a generalized Hidden Markov Model with a new method for modeling the intron length distribution. This method allows approximation of the true intron length distribution m...

journal_title：Nucleic acids research

authors： Stanke M,Steinkamp R,Waack S,Morgenstern B

更新日期：2004-07-01 00:00:00

abstract：:Upon infection of Escherichia coli by bacteriophage Qβ, the virus-encoded β-subunit recruits host translation elongation factors EF-Tu and EF-Ts and ribosomal protein S1 to form the Qβ replicase holoenzyme complex, which is responsible for amplifying the Qβ (+)-RNA genome. Here, we use X-ray crystallography, NMR spect...

journal_title：Nucleic acids research

authors： Gytz H,Mohr D,Seweryn P,Yoshimura Y,Kutlubaeva Z,Dolman F,Chelchessa B,Chetverin AB,Mulder FA,Brodersen DE,Knudsen CR

更新日期：2015-12-15 00:00:00

abstract：:We describe a novel 3'-OH unblocked reversible terminator with the potential to improve accuracy and read-lengths in next-generation sequencing (NGS) technologies. This terminator is based on 5-hydroxymethyl-2'-deoxyuridine triphosphate (HOMedUTP), a hypermodified nucleotide found naturally in the genomes of numerous ...

journal_title：Nucleic acids research

authors： Litosh VA,Wu W,Stupi BP,Wang J,Morris SE,Hersh MN,Metzker ML

更新日期：2011-03-01 00:00:00

abstract：:Alu insertions have contributed to >11% of the human genome and ∼30-35 Alu subfamilies remain actively mobile, yet the characterization of polymorphic Alu insertions from short-read data remains a challenge. We build on existing computational methods to combine Alu detection and de novo assembly of WGS data as a means...

journal_title：Nucleic acids research

authors： Wildschutte JH,Baron A,Diroff NM,Kidd JM

更新日期：2015-12-02 00:00:00

abstract：:Ribotoxins are potent inhibitors of protein biosynthesis and inactivate ribosomes from a variety of organisms. The ribotoxin alpha-sarcin cleaves the large 23S ribosomal RNA (rRNA) at the universally conserved sarcin-ricin loop (SRL) leading to complete inactivation of the ribosome and cellular death. The SRL interact...

journal_title：Nucleic acids research

authors： García-Ortega L,Alvarez-García E,Gavilanes JG,Martínez-del-Pozo A,Joseph S

更新日期：2010-07-01 00:00:00

abstract：:The influence of an upstream small open reading frame (URF) on the translation of two consecutive coding regions on an eukaryotic mRNA was studied. The cis effects of leader length, URF length, the sequences of the URF and neighboring regions, and the trans effects of the Cauliflower mosaic virus transactivator (TAV) ...

journal_title：Nucleic acids research

authors： Fütterer J,Hohn T

更新日期：1992-08-11 00:00:00

abstract：:We have cloned and mapped the sequences extending 38 kb 3' of the c-myc gene. This region is found to be highly repetitive in nature and hybridizes extensively with a BLUR 8 Alu probe. Unique sequence probes derived from this region were used to map the chromosomal breakpoints of a number of lymphoma cell lines with t...

journal_title：Nucleic acids research

authors： Sun LK,Showe LC,Croce CM

更新日期：1986-05-27 00:00:00

abstract：:Inadequate cellular compartmentalisation of plasmid DNA and antisense oligodeoxynucleotides (ODNs) is generally considered as a major limitation in their use. In this study, an approach combining in situ visual-isation of rhodamine-labelled ODNs and affinity modification of proteins by radiolabelled-alkylating ODN der...

journal_title：Nucleic acids research

authors： Laktionov PP,Dazard JE,Vives E,Rykova EY,Piette J,Vlassov VV,Lebleu B

更新日期：1999-06-01 00:00:00

abstract：:Recombinant plasmids which contain EcoRI fragments of tobacco chloroplast DNA carrying tRNA genes were constructed. Plasmids pTC211 and pTC293 contain the base sequences for tRNAAsn in their 1.4 and 1.1 Md EcoRI fragments, respectively. These two tRNA sequences are identical and are; 5'-TCCTCAGTAGCTCAGTGGTAGAGCGGTCGGC...

journal_title：Nucleic acids research

authors： Kato A,Shimada H,Kusuda M,Sugiura M

更新日期：1981-11-11 00:00:00

abstract：:A sixty base pair DNA duplex containing the nucleotide sequence of the bacteriophage T5 early (T5P25) promoter has been constructed using a combination of chemical synthesis and enzymatic methods. Subsequent to cloning into pBR322, the promoter has been demonstrated to be biologically active being capable of directing...

journal_title：Nucleic acids research

authors： Rommens J,MacKnight D,Pomeroy-Cloney L,Jay E

更新日期：1983-09-10 00:00:00

abstract：:To synchronize SV40 replicons, simian cells infected with a tsA mutant were restricted at 40 degrees, to complete ongoing replication and returned to 32 degrees, to activate new replicons in the presence of the DNA chain elongation inhibitor aphidicolin. Upon further incubation at 40 degrees without the drug, 3H-dT wa...

journal_title：Nucleic acids research

authors： Dinter-Gottlieb G,Kaufmann G

更新日期：1982-01-22 00:00:00

abstract：:Plant specialized metabolites are chemically highly diverse, play key roles in host-microbe interactions, have important nutritional value in crops and are frequently applied as medicines. It has recently become clear that plant biosynthetic pathway-encoding genes are sometimes densely clustered in specific genomic lo...

journal_title：Nucleic acids research

authors： Kautsar SA,Suarez Duran HG,Blin K,Osbourn A,Medema MH

更新日期：2017-07-03 00:00:00

abstract：:Type II restriction endonucleases Bam HI and Eco RI were covalently coupled to Sepharose. These insolubilized enzymes generated fragment patterns for several viral DNAs identical to those produced by the respective free enzymes. Conditions for optimal activity were similar for both bound and unbound forms of the enzym...

journal_title：Nucleic acids research

authors： Lee YH,Blakesley RW,Smith LA,Chirikjian JG

更新日期：1978-03-01 00:00:00

abstract：:Bacteriophage Mu has one of the best studied, most efficient and largest transposition machineries of the prokaryotic world. To harness this attractive integration machinery for use in mammalian cells, we cloned the coding sequences of the phage factors MuA and MuB in a eukaryotic expression cassette and fused them to...

journal_title：Nucleic acids research

authors： Schagen FH,Rademaker HJ,Cramer SJ,van Ormondt H,van der Eb AJ,van de Putte P,Hoeben RC

更新日期：2000-12-01 00:00:00

abstract：:Alternative first exons diversify the transcriptomes of eukaryotes by producing variants of the 5' Untranslated Regions (5'UTRs) and N-terminal coding sequences. Accurate transcriptome-wide detection of alternative first exons typically requires specialized experimental approaches that are designed to identify the 5' ...

journal_title：Nucleic acids research

authors： Qin Z,Stoilov P,Zhang X,Xing Y

更新日期：2018-05-04 00:00:00

abstract：:We examined the mechanism regulating the cellular levels of PNKP, the major kinase/phosphatase involved in the repair of oxidative DNA damage, and find that it is controlled by ATM phosphorylation and ubiquitylation-dependent proteasomal degradation. We discovered that ATM-dependent phosphorylation of PNKP at serines ...

journal_title：Nucleic acids research

authors： Parsons JL,Khoronenkova SV,Dianova II,Ternette N,Kessler BM,Datta PK,Dianov GL

更新日期：2012-12-01 00:00:00

abstract：:Human stem cells are promising sources for regenerative therapy. To ensure safety of future therapeutic applications, the differentiation potency of stem cells has to be tested and be widely opened to the public. The potency is generally assessed by teratoma formation comprising differentiated cells from all three ger...

journal_title：Nucleic acids research

authors： Park SJ,Komiyama Y,Suemori H,Umezawa A,Nakai K

更新日期：2016-01-04 00:00:00

abstract：:MicroRNAs (miRNAs) are small RNAs ∼22 nt in length that are involved in the regulation of a variety of physiological and pathological processes. Advances in high-throughput small RNA sequencing (smRNA-seq), one of the next-generation sequencing applications, have reshaped the miRNA research landscape. In this study, w...

journal_title：Nucleic acids research

authors： Cheng WC,Chung IF,Huang TS,Chang ST,Sun HJ,Tsai CF,Liang ML,Wong TT,Wang HW

更新日期：2013-01-01 00:00:00

abstract：:We describe a versatile and extensible integrated bioinformatics toolkit for the analysis of biological sequences over the Internet. The web portal offers convenient interactive access to a growing pool of chainable bioinformatics software tools and databases that are centrally installed and maintained by the RZG. Cur...

journal_title：Nucleic acids research

authors： Rampp M,Soddemann T,Lederer H

更新日期：2006-07-01 00:00:00

abstract：:Cleavage of phosphodiester bonds by small ribonuclease mimics within different bulge-loops of RNA was investigated. Bulge-loops of different size (1-7 nt) and sequence composition were formed in a 3' terminal fragment of influenza virus M2 RNA (96 nt) by hybridization of complementary oligodeoxynucleotides. Small bulg...

journal_title：Nucleic acids research

authors： Kuznetsova IL,Zenkova MA,Gross HJ,Vlassov VV

更新日期：2005-02-24 00:00:00

abstract：:Chemically modified siRNAs are expected to have resistance toward nuclease degradation and good thermal stability in duplex formation for in vivo applications. We have recently found that 2'-OMe-4'-thioRNA, a hybrid chemical modification based on 2'-OMeRNA and 4'-thioRNA, has high hybridization affinity for complement...

journal_title：Nucleic acids research

authors： Takahashi M,Nagai C,Hatakeyama H,Minakawa N,Harashima H,Matsuda A

更新日期：2012-07-01 00:00:00

abstract：:The ASTRAL compendium provides several databases and tools to aid in the analysis of protein structures, particularly through the use of their sequences. It is partially derived from the SCOP database of protein domains, and it includes sequences for each domain as well as other resources useful for studying these seq...

journal_title：Nucleic acids research

authors： Chandonia JM,Walker NS,Lo Conte L,Koehl P,Levitt M,Brenner SE

更新日期：2002-01-01 00:00:00

abstract：:The genomic distribution of 23 nuclear genes from three dicotyledons (pea, sunflower, tobacco) and five monocotyledons of the Gramineae family (barley, maize, rice, oat, wheat) was studied by localizing these genes in DNA fractions obtained by preparative centrifugation in Cs2SO4/BAMD density gradients. Each one of th...

journal_title：Nucleic acids research

authors： Montero LM,Salinas J,Matassi G,Bernardi G

更新日期：1990-04-11 00:00:00

abstract：:An R-loop is a DNA:RNA hybrid formed during transcription when a DNA duplex is invaded by a nascent RNA transcript. R-loops accumulate in nucleoli during RNA polymerase I (RNAP I) transcription. Here, we report that mammalian RNase H1 enriches in nucleoli and co-localizes with R-loops in cultured human cells. Co-migra...

journal_title：Nucleic acids research

authors： Shen W,Sun H,De Hoyos CL,Bailey JK,Liang XH,Crooke ST

更新日期：2017-10-13 00:00:00

abstract：:A study of the activity of deoxyribonucleotide-substituted analogs of the hammerhead domain of RNA catalysis has led to the design of a 14mer oligomer composed entirely of deoxyribonucleotides that promotes the cleavage of an RNA substrate. Characterization of this reaction with sequence variants and mixed DNA/RNA oli...

journal_title：Nucleic acids research

authors： Chartrand P,Harvey SC,Ferbeyre G,Usman N,Cedergren R

更新日期：1995-10-25 00:00:00

abstract：:For characterizing in vivo functions of a mammalian protein, it is informative to obtain conditional mutations and apply them to the mouse genetic system. However, the isolation of conditional mutations has been quite difficult in cultured cells. We report here that functional expression of a heterologous mammalian ge...

journal_title：Nucleic acids research

authors： Adachi N,Ikeda H,Kikuchi A

更新日期：1994-10-11 00:00:00

abstract：:We have previously identified a T lymphocyte protein which binds to a site within the LTR of the human immunodeficiency virus type 1 (HIV-1) and exerts an inhibitory effect on virus gene expression. The palindromic site (site B) recognized by this protein is related to the palindromic binding sites of members of the s...

journal_title：Nucleic acids research

authors： Orchard K,Lang G,Collins M,Latchman D

更新日期：1992-10-25 00:00:00

abstract：:We have compiled the DNA sequence data for E. coli K12 available from the GENBANK and EMBO databases and over a period of several years independently from the literature. We have introduced all available genetic map data and have arranged the sequences accordingly. As far as possible the overlaps are deleted and a tot...

journal_title：Nucleic acids research

authors： Kröger M

更新日期：1989-01-01 00:00:00