TRDB--the Tandem Repeats Database.

abstract：:Eukaryotic genomes contain many endogenous retroviral sequences (ERVs). ERVs are often severely mutated, therefore difficult to detect. A platform independent (Java) program package, RetroTector (ReTe), was constructed. It has three basic modules: (i) detection of candidate long terminal repeats (LTRs), (ii) detection...

journal_title：Nucleic acids research

authors： Sperber GO,Airola T,Jern P,Blomberg J

更新日期：2007-01-01 00:00:00

abstract：:Chicken globin double-stranded cDNA was synthesised from anaemic adult reticulocyte alpha- and beta-globin mRNA and ligated into the Hind III site of pBR322 using synthetic Hind III decamers. Transformation of E. coli x1776 resulted in the production of a number of alpha- and beta-cDNA clones. One of the alpha-type cl...

journal_title：Nucleic acids research

authors： Deacon NJ,Shine J,Naora H

更新日期：1980-03-25 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：:RNA G-quadruplexes (G4s) are secondary structures proposed to function as regulators of post-transcriptional mRNA localisation and translation. G4s within some neuronal mRNAs are known to control distal localisation and local translation, contributing to distinct local proteomes that facilitate the synaptic remodellin...

journal_title：Nucleic acids research

authors： Maltby CJ,Schofield JPR,Houghton SD,O'Kelly I,Vargas-Caballero M,Deinhardt K,Coldwell MJ

更新日期：2020-09-25 00:00:00

abstract：:Gene rewiring is a common evolutionary phenomenon in nature that may lead to extinction for living organisms. Recent studies on synthetic biology demonstrate that cells can survive genetic rewiring. This survival (adaptation) is often linked to the stochastic expression of rewired genes with random transcriptional cha...

journal_title：Nucleic acids research

authors： Murakami Y,Matsumoto Y,Tsuru S,Ying BW,Yomo T

更新日期：2015-01-01 00:00:00

abstract：:The nature of mammalian origins of DNA replication remains controversial and this is primarily because two-dimensional gel replicon mapping techniques have identified broad zones of replication initiation whereas several other techniques, such as quantitative PCR, have disclosed more discrete sites of initiation at th...

journal_title：Nucleic acids research

authors： Toledo F,Baron B,Fernandez MA,Lachagès AM,Mayau V,Buttin G,Debatisse M

更新日期：1998-05-15 00:00:00

abstract：:TFIIB plays a pivotal role during assembly of the RNA polymerase II transcription preinitiation complex. TFIIB is composed of two domains that engage in an intramolecular interaction that can be disrupted by the VP16 activation domain. In this study, we describe a novel human TFIIB derivative harbouring two point muta...

journal_title：Nucleic acids research

authors： Glossop JA,Dafforn TR,Roberts SG

更新日期：2004-03-22 00:00:00

abstract：:Nitrated polycyclic aromatic hydrocarbons are common environmental pollutants, of which many are mutagenic and carcinogenic. 1-Nitropyrene is the most abundant nitrated polycyclic aromatic hydrocarbon, which causes DNA damage and is carcinogenic in experimental animals. Error-prone translesion synthesis of 1-nitropyre...

journal_title：Nucleic acids research

authors： Kirouac KN,Basu AK,Ling H

更新日期：2013-02-01 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：:Gene-order-based comparison of multiple genomes provides signals for functional analysis of genes and the evolutionary process of genome organization. Gene clusters are regions of co-localized genes on genomes of different species. The rapid increase in sequenced genomes necessitates bioinformatics tools for finding g...

journal_title：Nucleic acids research

authors： Winter S,Jahn K,Wehner S,Kuchenbecker L,Marz M,Stoye J,Böcker S

更新日期：2016-11-16 00:00:00

abstract：:To study the effect of intron size on splicing efficiency we have varied the size of the avian leukosis virus (ALV) env mRNA intron in a cloned ALV genome. This was accomplished by deletion of ALV sequences or insertion of phage lambda DNA. The effect of these modifications on splicing was analyzed by microinjection o...

journal_title：Nucleic acids research

authors： Cullen BR,Kopchick JJ,Stacey DW

更新日期：1982-10-11 00:00:00

abstract：:Comparative analysis of mutants using transfection is complicated by clones exhibiting variable levels of gene expression due to copy number differences and genomic position effects. Recombinase-mediated cassette exchange (RMCE) can overcome these problems by introducing the target gene into pre-determined chromosomal...

journal_title：Nucleic acids research

authors： Wong ET,Kolman JL,Li YC,Mesner LD,Hillen W,Berens C,Wahl GM

更新日期：2005-10-04 00:00:00

abstract：:The field bean, Vicia faba L. var. minor, possesses two sub-families of 11 S legumin genes named A and B. We isolated from a genomic library a B-type gene (LeB4) and determined its primary DNA sequence. Gene LeB4 codes for a 484 amino acid residue prepropolypeptide, encompassing a signal peptide of 22 amino acid resid...

journal_title：Nucleic acids research

authors： Bäumlein H,Wobus U,Pustell J,Kafatos FC

更新日期：1986-03-25 00:00:00

abstract：:Pentatricopeptide repeat (PPR) proteins are helical-repeat proteins that offer a promising scaffold for the engineering of proteins to bind specified RNAs. PPR tracts bind RNA in a modular 1-repeat, 1-nucleotide fashion. An amino acid code specifying the bound nucleotide has been elucidated. However, this code does no...

journal_title：Nucleic acids research

authors： Miranda RG,McDermott JJ,Barkan A

更新日期：2018-03-16 00:00:00

abstract：:5' mediated cytoplasmic RNA decay is a conserved cellular process in eukaryotes. While the functions of the structured core domains in this pathway are well-studied, the role of abundant intrinsically disordered regions (IDRs) is lacking. Here we reconstitute the Dcp1:Dcp2 complex containing a portion of the disordere...

journal_title：Nucleic acids research

authors： Paquette DR,Tibble RW,Daifuku TS,Gross JD

更新日期：2018-07-06 00:00:00

abstract：:We have sequenced the 0.7-kb-long fragment of Drosophila DNA which ensures the autonomous replication of plasmids in yeast. Deletion mapping has shown the ARS element to consist of at least two domains: the core having the consensus 11-bp sequence TAAATATAAAT and the enhancer which is no more than 90 bp long and is lo...

journal_title：Nucleic acids research

authors： Gragerov AI,Danilevskaya ON,Didichenko SA,Kaverina EN

更新日期：1988-02-11 00:00:00

abstract：:The 5' and 3' untranslated regions of eukaryotic mRNAs (UTRs) play crucial roles in the post-transcriptional regulation of gene expression through the modulation of nucleo-cytoplasmic mRNA transport, translation efficiency, subcellular localization and message stability. UTRdb is a curated database of 5' and 3' untran...

journal_title：Nucleic acids research

authors： Grillo G,Turi A,Licciulli F,Mignone F,Liuni S,Banfi S,Gennarino VA,Horner DS,Pavesi G,Picardi E,Pesole G

更新日期：2010-01-01 00:00:00

abstract：:LOCtarget is a web server and database that predicts and annotates sub-cellular localization for structural genomics targets; LOCnet is one of the methods used in LOCtarget that can predict sub-cellular localization for all eukaryotic and prokaryotic proteins. Targets are taken from the central registration database f...

journal_title：Nucleic acids research

authors： Nair R,Rost B

更新日期：2004-07-01 00:00:00

abstract：:SynergyFinder (https://synergyfinder.fimm.fi) is a stand-alone web-application for interactive analysis and visualization of drug combination screening data. Since its first release in 2017, SynergyFinder has become a widely used web-tool both for the discovery of novel synergistic drug combinations in pre-clinical mo...

journal_title：Nucleic acids research

authors： Ianevski A,Giri AK,Aittokallio T

更新日期：2020-07-02 00:00:00

abstract：:Novel techniques for high-throughput steady-state metabolomic profiling yield information about changes of nearly thousands of metabolites. Such metabolomic profiles, when analyzed together with transcriptional profiles, can reveal novel insights about underlying biological processes. While a number of conceptual appr...

journal_title：Nucleic acids research

authors： Sergushichev AA,Loboda AA,Jha AK,Vincent EE,Driggers EM,Jones RG,Pearce EJ,Artyomov MN

更新日期：2016-07-08 00:00:00

abstract：:Tetrahymena thermophila mitochondrial DNA is a linear molecule with two tRNAs, large subunit beta (LSU beta) rRNA (21S rRNA) and LSU alpha rRNA (5.8S-like RNA) encoded near each terminus. The DNA sequence of approximately 550 bp of this region was determined in six species of Tetrahymena. In three species the LSU beta...

journal_title：Nucleic acids research

authors： Morin GB,Cech TR

更新日期：1988-01-11 00:00:00

abstract：:RNA pseudoknots are functional structure elements with key roles in viral and cellular processes. Prediction of a pseudoknotted minimum free energy structure is an NP-complete problem. Practical algorithms for RNA structure prediction including restricted classes of pseudoknots suffer from high runtime and poor accura...

journal_title：Nucleic acids research

authors： Sperschneider J,Datta A

更新日期：2010-04-01 00:00:00

abstract：:Although Dicer is essential for general microRNA (miRNA) biogenesis, vertebrate mir-451 is Dicer independent. Instead, its short pre-miRNA hairpin is 'sliced' by Ago2, then 3'-resected into mature miRNAs. Here, we show that Drosophila cells and animals generate functional small RNAs from mir-451-type precursors. Howev...

journal_title：Nucleic acids research

authors： Yang JS,Smibert P,Westholm JO,Jee D,Maurin T,Lai EC

更新日期：2014-02-01 00:00:00

abstract：:The advent of jellyfish green fluorescent protein and its spectral variants, together with promising new fluorescent proteins from other classes of the Cnidarian phylum (coral and anemones), has greatly enhanced and promises to further boost the detection and localization of proteins in cell biology. It has been less ...

journal_title：Nucleic acids research

authors： Pederson T

更新日期：2001-03-01 00:00:00

abstract：:Interleukin 2 (IL2) mRNA has a short half-life in the cytoplasm of T lymphocytes, relative to most mRNA. We have discovered a candidate ribonuclease to account for the rapid turnover of IL2 mRNA in the cytosol of the human T lymphocyte cell line Jurkat. In partially purified form, this RNase is about 7 times as active...

journal_title：Nucleic acids research

authors： Hua J,Garner R,Paetkau V

更新日期：1993-01-11 00:00:00

abstract：:Two new endonuclease activities, endonuclease B and endonuclease C, obtained from yeast nuclear preparations have been separated and partially characterized. Endonuclease B has a primary requirement for Mn2+ which cannot be replaced by Mg2+ or Ca2+, and makes single-strand scissions in double-stranded DNA. Endonculeas...

journal_title：Nucleic acids research

authors： Pinon R,Leney E

更新日期：1975-07-01 00:00:00

abstract：:Triantennary N-acetyl galactosamine (GalNAc, GN3: ), a high-affinity ligand for the hepatocyte-specific asialoglycoprotein receptor (ASGPR), enhances the potency of second-generation gapmer antisense oligonucleotides (ASOs) 6-10-fold in mouse liver. When combined with next-generation ASO designs comprised of short S-c...

journal_title：Nucleic acids research

authors： Prakash TP,Graham MJ,Yu J,Carty R,Low A,Chappell A,Schmidt K,Zhao C,Aghajan M,Murray HF,Riney S,Booten SL,Murray SF,Gaus H,Crosby J,Lima WF,Guo S,Monia BP,Swayze EE,Seth PP

更新日期：2014-07-01 00:00:00

abstract：:The three dimensional crystal structure of T5 5'-3' exonuclease was compared with that of two other members of the 5'-3' exonuclease family: T4 ribonuclease H and the N-terminal domain of Thermus aquaticus DNA polymerase I. Though these structures were largely similar, some regions of these enzymes show evidence of si...

journal_title：Nucleic acids research

authors： Artymiuk PJ,Ceska TA,Suck D,Sayers JR

更新日期：1997-11-01 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

authors： Amir A,Zeisel A,Zuk O,Elgart M,Stern S,Shamir O,Turnbaugh PJ,Soen Y,Shental N

更新日期：2013-12-01 00:00:00

abstract：:HbVar (http://globin.bx.psu.edu/hbvar) is one of the oldest and most appreciated locus-specific databases launched in 2001 by a multi-center academic effort to provide timely information on the genomic alterations leading to hemoglobin variants and all types of thalassemia and hemoglobinopathies. Database records incl...

journal_title：Nucleic acids research

authors： Giardine B,Borg J,Viennas E,Pavlidis C,Moradkhani K,Joly P,Bartsakoulia M,Riemer C,Miller W,Tzimas G,Wajcman H,Hardison RC,Patrinos GP

更新日期：2014-01-01 00:00:00