Works matching IS 03051048 AND DT 2013 AND VI 41 AND IP 1

Results: 99

UUCD: a family-based database of ubiquitin and ubiquitin-like conjugation.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D445, doi. 10.1093/nar/gks1103

By:

Tianshun Gao;
Zexian Liu;
Yongbo Wang;
Han Cheng;
Qing Yang;
Anyuan Guo;
Jian Ren;
Yu Xue

Publication type:

Article

dictyBase 2013: integrating multiple Dictyostelid species.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D676, doi. 10.1093/nar/gks1064

By:

Basu, Siddhartha;
Fey, Petra;
Pandit, Yogesh;
Dodson, Robert;
Kibbe, Warren A.;
Chisholm, Rex L.

Publication type:

Article

Xenbase: expansion and updates of the Xenopus model organism database.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D865, doi. 10.1093/nar/gks1025

By:

James-Zorn, Christina;
Ponferrada, Virgilio G.;
Jarabek, Chris J.;
Burns, Kevin A.;
Segerdell, Erik J.;
Lee, Jacqueline;
Snyder, Kevin;
Bhattacharyya, Bishnu;
Karpinka, J. Brad;
Fortriede, Joshua;
Bowes, Jeff B.;
Zorn, Aaron M.;
Vize, Peter D.

Publication type:

Article

The UCSC Genome Browser database: extensions and updates 2013.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D64, doi. 10.1093/nar/gks1048

By:

Meyer, Laurence R.;
Zweig, Ann S.;
Hinrichs, Angie S. Hinrichs;
Karolchik, Donna;
Kuhn, Robert M.;
Matthew Wong;
Sloan, Cricket A.;
Rosenbloom, Kate R.;
Roe, Greg;
Rhead, Brooke;
Raney, Brian J.;
Pohl, Andy;
Malladi, Venkat S.;
Li, Chin H.;
Lee, Brian T.;
Learned, Katrina;
Kirkup, Vanessa;
Fan Hsu;
Heitner, Steve;
Harte, Rachel A.

Publication type:

Article

Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D499, doi. 10.1093/nar/gks1266

By:

Lewis, Tony E.;
Sillitoe, Ian;
Andreeva, Antonina;
Blundell, Tom L.;
Buchan, Daniel W.A.;
Chothia, Cyrus;
Cuff, Alison;
Dana, Jose M.;
Filippis, Ioannis;
Gough, Julian;
Hunter, Sarah;
Jones, David T.;
Kelley, Lawrence A.;
Kleywegt, Gerard J.;
Minneci, Federico;
Mitchell, Alex;
Murzin, Alexey G.;
Ochoa- Montaño, Bernardo;
Rackham, Owen J. L.;
Smith, James

Publication type:

Article

The disease and gene annotations (DGA): an annotation resource for human disease

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D553, doi. 10.1093/nar/gks1244

By:

Kai Peng;
Wei Xu;
Jianyong Zheng;
Kegui Huang;
Huisong Wang;
Jiansong Tong;
Zhifeng Lin;
Jun Liu;
Wenqing Cheng;
Dong Fu;
Pan Du;
Kibbe, Warren A.;
Lin, Simon M.;
Tian Xia

Publication type:

Article

APPRIS: annotation of principal and alternative splice isoforms.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. D110, doi. 10.1093/nar/gks1058

By:

Manuel Rodriguez, Jose;
Maietta, Paolo;
Ezkurdia, Iakes;
Pietrelli, Alessandro;
Wesselink, Jan-Jaap;
Lopez, Gonzalo;
Valencia, Alfonso;
Tress, Michael L.

Publication type:

Article

Comparison of mRNA features affecting translation initiation and reinitiation.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 474, doi. 10.1093/nar/gks989

By:

Osterman, Ilya A.;
Evfratov, Sergey A.;
Sergiev, Petr V.;
Dontsova, Olga A.

Publication type:

Article

miRNA repression of translation in vitro takes place during 43S ribosomal scanning.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 586, doi. 10.1093/nar/gks1076

By:

Ricci, Emiliano P.;
Limousin, Taran;
Soto-Rifo, Ricardo;
Rubilar, Paulina S.;
Decimo, Didier;
Ohlmann, Théophile

Publication type:

Article

The BET bromodomain inhibitor JQ1 activates HIV latency through antagonizing Brd4 inhibition of Tat-transactivation.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 277, doi. 10.1093/nar/gks976

By:

Li, Zichong;
Guo, Jia;
Wu, Yuntao;
Zhou, Qiang

Publication type:

Article

The common ancestral core of vertebrate and fungal telomerase RNAs.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 450, doi. 10.1093/nar/gks980

By:

Qi, Xiaodong;
Li, Yang;
Honda, Shinji;
Hoffmann, Steve;
Marz, Manja;
Mosig, Axel;
Podlevsky, Joshua D.;
Stadler, Peter F.;
Selker, Eric U.;
Chen, Julian J.-L.

Publication type:

Article

A co-localization model of paired ChIP-seq data using a large ENCODE data set enables comparison of multiple samples.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 54, doi. 10.1093/nar/gks1010

By:

Maehara, Kazumitsu;
Odawara, Jun;
Harada, Akihito;
Yoshimi, Tomohiko;
Nagao, Koji;
Obuse, Chikashi;
Akashi, Koichi;
Tachibana, Taro;
Sakata, Toshio;
Ohkawa, Yasuyuki

Publication type:

Article

Genome-wide study predicts promoter-G4 DNA motifs regulate selective functions in bacteria: radioresistance of D. radiodurans involves G4 DNA-mediated regulation.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 76, doi. 10.1093/nar/gks1071

By:

Beaume, Nicolas;
Pathak, Rajiv;
Yadav, Vinod Kumar;
Kota, Swathi;
Misra, Hari S.;
Gautam, Hemant K.;
Chowdhury, Shantanu

Publication type:

Article

The mammalian TRIM-NHL protein TRIM71/LIN-41 is a repressor of mRNA function.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 518, doi. 10.1093/nar/gks1032

By:

Loedige, Inga;
Gaidatzis, Dimos;
Sack, Ragna;
Meister, Gunter;
Filipowicz, Witold

Publication type:

Article

The coactivator role of histone deacetylase 3 in IL-1-signaling involves deacetylation of p65 NF-κB.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 90

By:

Ziesché, Elisabeth;
Kettner-Buhrow, Daniela;
Weber, Axel;
Wittwer, Tobias;
Jurida, Liane;
Soelch, Johanna;
Müller, Helmut;
Newel, Doris;
Kronich, Petra;
Schneider, Heike;
Dittrich-Breiholz, Oliver;
Bhaskara, Srividya;
Hiebert, Scott W.;
Hottiger, Michael O.;
Li, Haiying;
Burstein, Ezra;
Schmitz, M. Lienhard;
Kracht, Michael

Publication type:

Article

Predicting the accuracy of multiple sequence alignment algorithms by using computational intelligent techniques.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e26

By:

Ortuño, Francisco M.;
Valenzuela, Olga;
Pomares, Hector;
Rojas, Fernando;
Florido, Javier P.;
Urquiza, Jose M.;
Rojas, Ignacio

Publication type:

Article

NGC: lossless and lossy compression of aligned high-throughput sequencing data.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e27, doi. 10.1093/nar/gks939

By:

Popitsch, Niko;
von Haeseler, Arndt

Publication type:

Article

Analysis of RNA cleavage by MALDI-TOF mass spectrometry.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e2, doi. 10.1093/nar/gks811

By:

Joyner, Jeff C.;
Keuper, Kevin D.;
Cowan, J. A.

Publication type:

Article

Possible steps of complete disassembly of post-termination complex by yeast eEF3 deduced from inhibition by translocation inhibitors.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 264, doi. 10.1093/nar/gks958

By:

Kurata, Shinya;
Shen, Ben;
Liu, Jun O.;
Takeuchi, Nono;
Kaji, Akira;
Kaji, Hideko

Publication type:

Article

Indirect read-out of the promoter DNA by RNA polymerase in the closed complex.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 366, doi. 10.1093/nar/gks1018

By:

Debnath, Subrata;
Roy, Neeladri Sekhar;
Bera, Indrani;
Ghoshal, Nanda;
Roy, Siddhartha

Publication type:

Article

siSPOTR: a tool for designing highly specific and potent siRNAs for human and mouse.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e9, doi. 10.1093/nar/gks797

By:

Boudreau, Ryan L.;
Spengler, Ryan M.;
Hylock, Ray H.;
Kusenda, Brandyn J.;
Davis, Heather A.;
Eichmann, David A.;
Davidson, Beverly L.

Publication type:

Article

Interpreting genomic data via entropic dissection.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e23, doi. 10.1093/nar/gks917

By:

Azad, Rajeev K.;
Li, Jing

Publication type:

Article

Along signal paths: an empirical gene set approach exploiting pathway topology.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e19, doi. 10.1093/nar/gks866

By:

Martini, Paolo;
Sales, Gabriele;
Massa, M. Sofia;
Chiogna, Monica;
Romualdi, Chiara

Publication type:

Article

Differential activation and functional specialization of miR-146 and miR-155 in innate immune sensing.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 542, doi. 10.1093/nar/gks1030

By:

Schulte, Leon N.;
Westermann, Alexander J.;
Vogel, Jörg

Publication type:

Article

Complete viral RNA genome sequencing of ultra-low copy samples by sequence-independent amplification.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e13, doi. 10.1093/nar/gks794

By:

Malboeuf, Christine M.;
Yang, Xiao;
Charlebois, Patrick;
Qu, James;
Berlin, Aaron M.;
Casali, Monica;
Pesko, Kendra N.;
Boutwell, Christian L.;
DeVincenzo, John P.;
Ebel, Gregory D.;
Allen, Todd M.;
Zody, Michael C.;
Henn, Matthew R.;
Levin, Joshua Z.

Publication type:

Article

Building the repertoire of dispensable chromosome regions in Bacillus subtilis entails major refinement of cognate large-scale metabolic model.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 687, doi. 10.1093/nar/gks963

By:

Tanaka, Kosei;
Henry, Christopher S.;
Zinner, Jenifer F.;
Jolivet, Edmond;
Cohoon, Matthew P.;
Xia, Fangfang;
Bidnenko, Vladimir;
Ehrlich, S. Dusko;
Stevens, Rick L.;
Noirot, Philippe

Publication type:

Article

Quadruplex formation as a molecular switch to turn on intrinsically fluorescent nucleotide analogs.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 220, doi. 10.1093/nar/gks975

By:

Johnson, John;
Okyere, Robert;
Joseph, Anupama;
Musier-Forsyth, Karin;
Kankia, Besik

Publication type:

Article

A minimal bacterial RNase J-based degradosome is associated with translating ribosomes.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 288, doi. 10.1093/nar/gks945

By:

Redko, Yulia;
Aubert, Sylvie;
Stachowicz, Anna;
Lenormand, Pascal;
Namane, Abdelkader;
Darfeuille, Fabien;
Thibonnier, Marie;
De Reuse, Hilde

Publication type:

Article

Spacing between core recognition motifs determines relative orientation of AraR monomers on bipartite operators.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 639, doi. 10.1093/nar/gks962

By:

Jain, Deepti;
Nair, Deepak T.

Publication type:

Article

Noncoder: a web interface for exon array-based detection of long non-coding RNAs.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e20, doi. 10.1093/nar/gks877

By:

Gellert, Pascal;
Ponomareva, Yuliya;
Braun, Thomas;
Uchida, Shizuka

Publication type:

Article

Identification of one of the apurinic/apyrimidinic lyase active sites of topoisomerase V by structural and functional studies.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 657, doi. 10.1093/nar/gks1017

By:

Rajan, Rakhi;
Prasad, Rajendra;
Taneja, Bhupesh;
Wilson, Samuel H.;
Mondragón, Alfonso

Publication type:

Article

X-inactivation: quantitative predictions of protein interactions in the Xist network.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e31, doi. 10.1093/nar/gks968

By:

Agostini, Federico;
Cirillo, Davide;
Bolognesi, Benedetta;
Tartaglia, Gian Gaetano

Publication type:

Article

Single-molecule kinetics reveal microscopic mechanism by which High-Mobility Group B proteins alter DNA flexibility.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 167, doi. 10.1093/nar/gks1031

By:

McCauley, Micah J.;
Rueter, Emily M.;
Rouzina, Ioulia;
Maher, L. James;
Williams, Mark C.

Publication type:

Article

Mechanism of RNA 2′,3′-cyclic phosphate end healing by T4 polynucleotide kinase–phosphatase.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 355, doi. 10.1093/nar/gks977

By:

Das, Ushati;
Shuman, Stewart

Publication type:

Article

MuMoD: a Bayesian approach to detect multiple modes of protein–DNA binding from genome-wide ChIP data.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 21, doi. 10.1093/nar/gks950

By:

Narlikar, Leelavati

Publication type:

Article

Nucleic Acids Research.

Published in:: Nucleic Acids Research, 2013, v. 41, n. 1, p. i, doi. 10.1093/nar/gks1366
Publication type:: Article

Deciphering the transcriptional regulation of microRNA genes in humans with ACTLocater.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e5, doi. 10.1093/nar/gks821

By:

Xiao, Zhen-Dong;
Diao, Li-Ting;
Yang, Jian-Hua;
Xu, Hui;
Huang, Mian-Bo;
Deng, Yong-Jin;
Zhou, Hui;
Qu, Liang-Hu

Publication type:

Article

Contribution of intersubunit bridges to the energy barrier of ribosomal translocation.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 565, doi. 10.1093/nar/gks1074

By:

Liu, Qi;
Fredrick, Kurt

Publication type:

Article

Dissociation and re-association of RNA polymerase with DNA during osmotic stress response in Escherichia coli.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 315, doi. 10.1093/nar/gks988

By:

Cagliero, Cedric;
Jin, Ding Jun

Publication type:

Article

The crystal structure of human telomeric DNA complexed with berberine: an interesting case of stacked ligand to G-tetrad ratio higher than 1:1.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 632, doi. 10.1093/nar/gks1001

By:

Bazzicalupi, Carla;
Ferraroni, Marta;
Bilia, Anna Rita;
Scheggi, Francesca;
Gratteri, Paola

Publication type:

Article

Reaction path ensemble of the B–Z-DNA transition: a comprehensive atomistic study.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 33, doi. 10.1093/nar/gks1003

By:

Moradi, Mahmoud;
Babin, Volodymyr;
Roland, Christopher;
Sagui, Celeste

Publication type:

Article

Nucleic Acids Research - Editorial Board.

Published in:: Nucleic Acids Research, 2013, v. 41, n. 1, p. ii, doi. 10.1093/nar/gks1390
Publication type:: Article

Quantifying RNA–protein interactions in situ using modified-MTRIPs and proximity ligation.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e12, doi. 10.1093/nar/gks837

By:

Jung, Jeenah;
Lifland, Aaron W.;
Zurla, Chiara;
Alonas, Eric J.;
Santangelo, Philip J.

Publication type:

Article

Selection of a T7 promoter mutant with enhanced in vitro activity by a novel multi-copy bead display approach for in vitro evolution.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e29, doi. 10.1093/nar/gks940

By:

Paul, Siddhartha;
Stang, Alexander;
Lennartz, Klaus;
Tenbusch, Matthias;
Überla, Klaus

Publication type:

Article

CpG_MPs: identification of CpG methylation patterns of genomic regions from high-throughput bisulfite sequencing data.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e4, doi. 10.1093/nar/gks829

By:

Su, Jianzhong;
Yan, Haidan;
Wei, Yanjun;
Liu, Hongbo;
Liu, Hui;
Wang, Fang;
Lv, Jie;
Wu, Qiong;
Zhang, Yan

Publication type:

Article

Sensitive and selective amplification of methylated DNA sequences using helper-dependent chain reaction in combination with a methylation-dependent restriction enzymes.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e15, doi. 10.1093/nar/gks831

By:

Rand, Keith N.;
Young, Graeme P.;
Ho, Thu;
Molloy, Peter L.

Publication type:

Article

FadE: whole genome methylation analysis for multiple sequencing platforms.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e14, doi. 10.1093/nar/gks830

By:

Souaiaia, Tade;
Zhang, Zheng;
Chen, Ting

Publication type:

Article

Metagenomic abundance estimation and diagnostic testing on species level.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e10, doi. 10.1093/nar/gks803

By:

Lindner, Martin S.;
Renard, Bernhard Y.

Publication type:

Article

Exome RNA sequencing reveals rare and novel alternative transcripts.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. e6, doi. 10.1093/nar/gks816

By:

Halvardson, Jonatan;
Zaghlool, Ammar;
Feuk, Lars

Publication type:

Article

Deep sequencing reveals unique small RNA repertoire that is regulated during head regeneration in Hydra magnipapillata.

Published in:

Nucleic Acids Research, 2013, v. 41, n. 1, p. 599, doi. 10.1093/nar/gks1020

By:

Krishna, Srikar;
Nair, Aparna;
Cheedipudi, Sirisha;
Poduval, Deepak;
Dhawan, Jyotsna;
Palakodeti, Dasaradhi;
Ghanekar, Yashoda

Publication type:

Article