High-resolution microbial community reconstruction by integrating short reads from multiple 16S rRNA regions.

abstract：:The MIPS Fusarium graminearum Genome Database (FGDB) is a comprehensive genome database on one of the most devastating fungal plant pathogens of wheat and barley. FGDB provides information on two gene sets independently derived by automated annotation of the F.graminearum genome sequence. A complete manually revised g...

journal_title：Nucleic acids research

authors： Güldener U,Mannhaupt G,Münsterkötter M,Haase D,Oesterheld M,Stümpflen V,Mewes HW,Adam G

更新日期：2006-01-01 00:00:00

abstract：:MicroRNAs (miRNAs) can group together along the human genome to form stable secondary structures made of several hairpins hosting miRNAs in their stems. The few known examples of such structures are all involved in cancer development. A large scale computational analysis of human chromosomes crossing sequence analysis...

journal_title：Nucleic acids research

authors： Mathelier A,Carbone A

更新日期：2013-04-01 00:00:00

abstract：:In the known monoclinic crystals the 3-dimensional structure of the hexameric, replicative helicase RepA encoded by plasmid RSF1010 shows 6-fold rotational symmetry. In contrast, in the cubic crystal form at 2.55 A resolution described here RepA has 3-fold symmetry and consists of a trimer of dimers. To study structur...

journal_title：Nucleic acids research

authors： Ziegelin G,Niedenzu T,Lurz R,Saenger W,Lanka E

更新日期：2003-10-15 00:00:00

abstract：:To understand the epigenetic regulation of transcriptional response of macrophages during early-stage M. tuberculosis (Mtb) infection, we performed ChIPseq analysis of H3K4 monomethylation (H3K4me1), a marker of poised or active enhancers. De novo H3K4me1 peaks in infected cells were associated with genes implicated i...

journal_title：Nucleic acids research

authors： Bouttier M,Laperriere D,Memari B,Mangiapane J,Fiore A,Mitchell E,Verway M,Behr MA,Sladek R,Barreiro LB,Mader S,White JH

更新日期：2016-12-15 00:00:00

abstract：:Rapid characterization of unknown biological samples is under the focus of many current studies. Here we report a method for screening of biological samples by optical mapping of their DNA. We use a novel, one-step chemo-enzymatic reaction to covalently bind fluorophores to DNA at the four-base recognition sites of a ...

journal_title：Nucleic acids research

authors： Grunwald A,Dahan M,Giesbertz A,Nilsson A,Nyberg LK,Weinhold E,Ambjörnsson T,Westerlund F,Ebenstein Y

更新日期：2015-10-15 00:00:00

abstract：:Achiral pseudonucleosides bearing an anthraquinone moiety have been incorporated into deoxyoligonucleotides in internal, 3' and 5' positions. The ability of these modified deoxyoligonucleotides to hybridize to complementary RNA and DNA was investigated using Tm measurements. The anthraquinone was shown to enhance bind...

journal_title：Nucleic acids research

authors： Lin KY,Matteucci M

更新日期：1991-06-11 00:00:00

abstract：:The third intron from Physarum polycephalum (Pp LSU 3) is one of the closest known relatives to the well-studied Tetrahymena group I intron. Both introns are located at the same position in the 26S rRNA gene, and with the exception of an open reading frame in Pp LSU 3, are highly homologous. While Pp LSU 3 has been sh...

journal_title：Nucleic acids research

authors： Rocheleau GA,Woodson SA

更新日期：1994-10-11 00:00:00

abstract：:SLM2 and Sam68 are splicing regulator paralogs that usually overlap in function, yet only SLM2 and not Sam68 controls the Neurexin2 AS4 exon important for brain function. Herein we find that SLM2 and Sam68 similarly bind to Neurexin2 pre-mRNA, both within the mouse cortex and in vitro. Protein domain-swap experiments ...

journal_title：Nucleic acids research

authors： Danilenko M,Dalgliesh C,Pagliarini V,Naro C,Ehrmann I,Feracci M,Kheirollahi-Chadegani M,Tyson-Capper A,Clowry GJ,Fort P,Dominguez C,Sette C,Elliott DJ

更新日期：2017-04-20 00:00:00

abstract：:We have determined the complete nucleotide sequence of the hormonally regulated yolk protein 1 (YP1) gene of Drosophila melanogaster. We have also determined the sequence location of the 5' and 3' ends of both the mature mRNA and the gene's only intron. The YP1 gene contains sequences similar to those found in many ot...

journal_title：Nucleic acids research

authors： Hung MC,Wensink PC

更新日期：1981-12-11 00:00:00

abstract：:We have previously shown that integration of a polyoma vector containing rodent repetitive elements into rat cellular DNA is non-random (Wallenburg et al. J. Virol. 50: 678-683). Junctions between the polyoma vector and the host DNA occur in the repetitive sequences of the vector about ten times more frequently than w...

journal_title：Nucleic acids research

authors： Wallenburg JC,Nepveu A,Chartrand P

更新日期：1987-10-12 00:00:00

abstract：:PAHdb (http://www.mcgill.ca/pahdb ) is a curated relational database (Fig. 1) of nucleotide variation in the human PAH cDNA (GenBank U49897). Among 328 different mutations by state (Fig. 2) the majority are rare mutations causing hyperphenylalaninemia (HPA) (OMIM 261600), the remainder are polymorphic variants without...

journal_title：Nucleic acids research

authors： Nowacki PM,Byck S,Prevost L,Scriver CR

更新日期：1998-01-01 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：:8-Oxo-7,8-dihydroguanine (8-oxoGua) is produced in cells by reactive oxygen species normally formed during cellular metabolic processes. This oxidized base can pair with both adenine and cytosine, and thus the existence of this base in messenger RNA would cause translational errors. The MutT protein of Escherichia col...

journal_title：Nucleic acids research

authors： Ishibashi T,Hayakawa H,Ito R,Miyazawa M,Yamagata Y,Sekiguchi M

更新日期：2005-07-07 00:00:00

abstract：:Post-translational modifications (such as ubiquitination) of clock proteins are critical in maintaining the precision and robustness of the evolutionarily conserved circadian clock. Ubiquitination of the core clock transcription factor BMAL1 (brain and muscle Arnt-like 1) has recently been reported. However, it remain...

journal_title：Nucleic acids research

authors： Gossan NC,Zhang F,Guo B,Jin D,Yoshitane H,Yao A,Glossop N,Zhang YQ,Fukada Y,Meng QJ

更新日期：2014-05-01 00:00:00

abstract：:Genome-wide expression profiling is a powerful tool for implicating novel gene ensembles in cellular mechanisms of health and disease. The most popular platform for genome-wide expression profiling is the Affymetrix GeneChip. However, its selection of probes relied on earlier genome and transcriptome annotation which ...

journal_title：Nucleic acids research

authors： Dai M,Wang P,Boyd AD,Kostov G,Athey B,Jones EG,Bunney WE,Myers RM,Speed TP,Akil H,Watson SJ,Meng F

更新日期：2005-11-10 00:00:00

abstract：:Impaired DNA damage repair, especially deficient transcription-coupled nucleotide excision repair, leads to segmental progeroid syndromes in human patients as well as in rodent models. Furthermore, DNA double-strand break signalling has been pinpointed as a key inducer of cellular senescence. Several recent findings s...

journal_title：Nucleic acids research

authors： Grillari J,Katinger H,Voglauer R

更新日期：2007-01-01 00:00:00

abstract：:A Fortran computer algorithm has been used to analyze the nucleotide sequence of several structural genes. The analysis performed on both coding and complementary DNA strands shows that whereas open reading frames shorter than 100 codons are randomly distributed on both DNA strands, open reading frames longer than 100...

journal_title：Nucleic acids research

authors： Casino A,Cipollaro M,Guerrini AM,Mastrocinque G,Spena A,Scarlato V

更新日期：1981-03-25 00:00:00

abstract：:NusG is an essential transcription factor that plays multiple key regulatory roles in transcription elongation, termination and coupling translation and transcription. The core role of NusG is to enhance transcription elongation and RNA polymerase processivity. Here, we present the structure of Escherichia coli RNA po...

journal_title：Nucleic acids research

authors： Liu B,Steitz TA

更新日期：2017-01-25 00:00:00

abstract：:Protein-protein and protein-DNA/RNA interactions play a fundamental role in a variety of biological processes. Determining the complex structures of these interactions is valuable, in which molecular docking has played an important role. To automatically make use of the binding information from the PDB in docking, her...

journal_title：Nucleic acids research

authors： Yan Y,Zhang D,Zhou P,Li B,Huang SY

更新日期：2017-07-03 00:00:00

abstract：:In human cells DNA damage caused by UV light is mainly repaired by the nucleotide excision repair pathway. This mechanism involves dual incisions on both sides of the damage catalyzed by two nucleases. In mammalian cells XPG cleaves 3' of the DNA lesion while the ERCC1-XPF complex makes the 5' incision. The amino acid...

journal_title：Nucleic acids research

authors： Rödel C,Jupitz T,Schmidt H

更新日期：1997-07-15 00:00:00

abstract：:Next generation sequencing is widely used to link genetic variants to diseases, and it has massively accelerated the diagnosis and characterization of rare genetic diseases. After initial bioinformatic data processing, the interactive analysis of genome, exome, and panel sequencing data typically starts from lists of ...

journal_title：Nucleic acids research

authors： Müller H,Jimenez-Heredia R,Krolo A,Hirschmugl T,Dmytrus J,Boztug K,Bock C

更新日期：2017-07-03 00:00:00

abstract：:Cytokines are cell-to-cell signaling proteins that play a central role in immune development, pathogen responses, and diseases. Cytokines are highly regulated at the transcriptional level by combinations of transcription factors (TFs) that recruit cofactors and the transcriptional machinery. Here, we mined through thr...

journal_title：Nucleic acids research

authors： Carrasco Pro S,Dafonte Imedio A,Santoso CS,Gan KA,Sewell JA,Martinez M,Sereda R,Mehta S,Fuxman Bass JI

更新日期：2018-10-12 00:00:00

abstract：:A novel method to measure mRNA levels has been developed by combining the detection capabilities of RNase protection (RPA) with the quantification advantages of scintillation proximity assay (SPA) technology. Sample processing is reduced to the addition of a single reagent post RNase digestion. As a model system, the ...

journal_title：Nucleic acids research

authors： Kenrick MK,Jiang L,Potts CL,Owen PJ,Shuey DJ,Econome JG,Anson JG,Quinet EM

更新日期：1997-07-15 00:00:00

abstract：:X chromosome inactivation results in the cis-limited inactivation of most, but not all, genes on one of the two X chromosomes in mammalian females. The molecular basis for inactivation is unknown. In order to examine the transcriptional activity of human X-linked genes, a series of mouse-human somatic cell hybrids und...

journal_title：Nucleic acids research

authors： Brown CJ,Flenniken AM,Williams BR,Willard HF

更新日期：1990-07-25 00:00:00

abstract：:Integrating DNA delivery systems hold promise for many applications including treatment of diseases; however, targeted integration is needed for improved safety. The piggyBac (PB) transposon system is a highly active non-viral gene delivery system capable of integrating defined DNA segments into host chromosomes witho...

journal_title：Nucleic acids research

authors： Luo W,Galvan DL,Woodard LE,Dorset D,Levy S,Wilson MH

更新日期：2017-08-21 00:00:00

abstract：:Pds5 is required for sister chromatid cohesion, and somewhat paradoxically, to remove cohesin from chromosomes. We found that Pds5 plays a critical role during DNA replication that is distinct from its previously known functions. Loss of Pds5 hinders replication fork progression in unperturbed human and mouse cells. I...

journal_title：Nucleic acids research

authors： Carvajal-Maldonado D,Byrum AK,Jackson J,Wessel S,Lemaçon D,Guitton-Sert L,Quinet A,Tirman S,Graziano S,Masson JY,Cortez D,Gonzalo S,Mosammaparast N,Vindigni A

更新日期：2019-02-20 00:00:00

abstract：:A new thermodynamic database for normal and modified nucleic acids has been developed. This Thermodynamic Database for Nucleic Acids (NTDB) includes sequence, structure and thermodynamic information as well as experimental methods and conditions. In this release, there are 1851 sequences containing both normal and mod...

journal_title：Nucleic acids research

authors： Chiu WL,Sze CN,Ip LN,Chan SK,Au-Yeung SC

更新日期：2001-01-01 00:00:00

abstract：:TcruziDB (http://TcruziDB.org) is an integrated genome database for the parasitic organism Trypanosoma cruzi, the causative agent of Chagas' disease. The database currently incorporates all available sequence data (Genomic, BAC, EST) in a single user-friendly location. The database contains a variety of tools specific...

journal_title：Nucleic acids research

authors： Luchtan M,Warade C,Weatherly DB,Degrave WM,Tarleton RL,Kissinger JC

更新日期：2004-01-01 00:00:00

abstract：:The cis-requirements for the first editing site in the atp9 mRNA from pea mitochondria were investigated in an in vitro RNA editing system. Template RNAs deleted 5' of -20 are edited correctly, but with decreased efficiency. Deletions between -20 and the edited nucleotide abolish editing activity. Substitution of the ...

journal_title：Nucleic acids research

authors： Takenaka M,Neuwirt J,Brennicke A

更新日期：2004-08-04 00:00:00

abstract：:The proportion of lysine tRNA represented by the isoacceptor species lysine tRNA4 has previously been shown to be largest in cells with the greatest ability to proliferate. Using reverse phase chromatography (RPC-5), we have analyzed the changes in the relative quantities of lysine tRNA species which occur in differen...

journal_title：Nucleic acids research

authors： Kleiman L,Woodward-Jack J,Cedergren RJ,Dion R

更新日期：1978-03-01 00:00:00