Works matching IS 03051048 AND DT 2018 AND VI 46 AND IP W1

Results: 86

CircadiOmics: circadian omic web portal.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W157, doi. 10.1093/nar/gky441

By:

Ceglia, Nicholas;
Yu Liu;
Siwei Chen;
Agostinelli, Forest;
Eckel-Mahan, Kristin;
Sassone-Corsi, Paolo;
Baldi, Pierre

Publication type:

Article

Identification and visualization of protein binding regions with the ArDock server.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W417, doi. 10.1093/nar/gky472

By:

Reille, Sébastien;
Garnier, Mélanie;
Robert, Xavier;
Gouet, Patrice;
Martin, Juliette;
Launay, Guillaume

Publication type:

Article

HMMER web server: 2018 update.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W200, doi. 10.1093/nar/gky448

By:

Potter, Simon C.;
Luciani, Aurélien;
Eddy, Sean R.;
Park, Youngmi;
Lopez, Rodrigo;
Finn, Robert D.

Publication type:

Article

The Microbial Genomes Atlas (MiGA) webserver: taxonomic and gene diversity analysis of Archaea and Bacteria at the whole genome level.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W282, doi. 10.1093/nar/gky467

By:

Rodriguez-R, Luis M.;
Gunturu, Santosh;
Harvey, William T.;
Rosselló-Mora, Ramon;
Tiedje, James M.;
Cole, James R.;
Konstantinidis, Konstantinos T.

Publication type:

Article

EviNet: a web platform for network enrichment analysis with flexible definition of gene sets.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W163, doi. 10.1093/nar/gky485

By:

Jeggari, Ashwini;
Alekseenko, Zhanna;
Dias, Iurii;
Dias, José M;
Ericson, Johan;
Alexeyenko, Andrey

Publication type:

Article

BeStSel: a web server for accurate protein secondary structure prediction and fold recognition from the circular dichroism spectra.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W315, doi. 10.1093/nar/gky497

By:

Micsonai, András;
Wien, Frank;
Bulyáki, Éva;
Kun, Judit;
Moussong, Éva;
Young-Ho Lee;
Yuji Goto;
Réfrégiers, Matthieu;
Kardos, József

Publication type:

Article

LOLAweb: a containerized web server for interactive genomic locus overlap enrichment analysis.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W194, doi. 10.1093/nar/gky464

By:

Nagraj, V. P.;
Magee, Neal E.;
Sheffield, Nathan C.

Publication type:

Article

Coloc-stats: a unified web interface to perform colocalization analysis of genomic features.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W186, doi. 10.1093/nar/gky474

By:

Simovski, Boris;
Kanduri, Chakravarthi;
Gundersen, Sveinung;
Titov, Dmytro;
Domanska, Diana;
Bock, Christoph;
Bossini-Castillo, Lara;
Chikina, Maria;
Favorov, Alexander;
Layer, Ryan M.;
Mironov, Andrey A.;
Quinlan, Aaron R.;
Sheffield, Nathan C.;
Trynka, Gosia;
Sandve, Geir K.

Publication type:

Article

CASTp 3.0: computed atlas of surface topography of proteins.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W363, doi. 10.1093/nar/gky473

By:

Wei Tian;
Chang Chen;
Xue Lei;
Jieling Zhao;
Jie Liang

Publication type:

Article

VarAFT: a variant annotation and filtration system for human next generation sequencing data.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W545, doi. 10.1093/nar/gky471

By:

Desvignes, Jean-Pierre;
Bartoli, Marc;
Delague, Valérie;
Krahn, Martin;
Miltgen, Morgane;
Béroud, Christophe;
Salgado, David

Publication type:

Article

The BaMM web server for de-novo motif discovery and regulatory sequence analysis.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W215, doi. 10.1093/nar/gky431

By:

Kiesel, Anja;
Roth, Christian;
Wanwan Ge;
Wess, Maximilian;
Meier, Markus;
Söding, Johannes

Publication type:

Article

COACH-D: improved protein–ligand binding sites prediction with refined ligand-binding poses through molecular docking.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W438, doi. 10.1093/nar/gky439

By:

Qi Wu;
Zhenling Peng;
Yang Zhang;
Jianyi Yang

Publication type:

Article

SMARTIV: combined sequence and structure de-novo motif discovery for in-vivo RNA binding data.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W221, doi. 10.1093/nar/gky453

By:

Polishchuk, Maya;
Paz, Inbal;
Yakhini, Zohar;
Mandel-Gutfreund, Yael

Publication type:

Article

GDA, a web-based tool for Genomics and Drugs integrated analysis.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W148, doi. 10.1093/nar/gky434

By:

Caroli, Jimmy;
Sorrentino, Giovanni;
Forcato, Mattia;
Del Sal, Giannino;
Bicciato, Silvio

Publication type:

Article

eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W171, doi. 10.1093/nar/gky458

By:

Clarke, Daniel J. B.;
Kuleshov, Maxim V.;
Schilder, Brian M.;
Torre, Denis;
Duffy, Mary E.;
Keenan, Alexandra B.;
Lachmann, Alexander;
Feldmann, Axel S.;
Gundersen, Gregory W.;
Silverstein, Moshe C.;
Zichen Wang;
Ma’ayan, Avi

Publication type:

Article

PaintOmics 3: a web resource for the pathway analysis and visualization of multi-omics data.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W503, doi. 10.1093/nar/gky466

By:

Hernández-de-Diego, Rafael;
Tarazona, Sonia;
Martínez-Mira, Carlos;
Balzano-Nogueira, Leandro;
Furió-Tarí, Pedro;
Pappas Jr, Georgios J.;
Conesa, Ana

Publication type:

Article

TCRmodel: high resolution modeling of T cell receptors from sequence.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W396, doi. 10.1093/nar/gky432

By:

Gowthaman, Ragul;
Pierce, Brian G.

Publication type:

Article

Editorial: The 16th annual Nucleic Acids Research web server issue 2018.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W1, doi. 10.1093/nar/gky518

By:

Benson, Gary

Publication type:

Article

KnotGenome: a server to analyze entanglements of chromosomes.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W17, doi. 10.1093/nar/gky511

By:

Sulkowska, Joanna I;
Niewieczerzal, Szymon;
Jarmolinska, Aleksandra I;
Siebert, Jonathan T;
Virnau, Peter;
Niemyska, Wanda

Publication type:

Article

OmicsNet: a web-based tool for creation and visual analysis of biological networks in 3D space.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W514, doi. 10.1093/nar/gky510

By:

Zhou, Guangyan;
Xia, Jianguo

Publication type:

Article

TAM 2.0: tool for MicroRNA set analysis.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W180, doi. 10.1093/nar/gky509

By:

Li, Jianwei;
Han, Xiaofen;
Wan, Yanping;
Zhang, Shan;
Zhao, Yingshu;
Fan, Rui;
Cui, Qinghua;
Zhou, Yuan

Publication type:

Article

EasyFRAP-web: a web-based tool for the analysis of fluorescence recovery after photobleaching data.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W467, doi. 10.1093/nar/gky508

By:

Koulouras, Grigorios;
Panagopoulos, Andreas;
Rapsomaniki, Maria A;
Giakoumakis, Nickolaos N;
Taraviras, Stavros;
Lygerou, Zoi

Publication type:

Article

Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W11, doi. 10.1093/nar/gky504

By:

Wolff, Joachim;
Bhardwaj, Vivek;
Nothjunge, Stephan;
Richard, Gautier;
Renschler, Gina;
Gilsbach, Ralf;
Manke, Thomas;
Backofen, Rolf;
Ramírez, Fidel;
Grüning, Björn A

Publication type:

Article

mTM-align: a server for fast protein structure database search and multiple protein structure alignment.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W380, doi. 10.1093/nar/gky430

By:

Dong, Runze;
Pan, Shuo;
Peng, Zhenling;
Zhang, Yang;
Yang, Jianyi

Publication type:

Article

GPCRM: a homology modeling web service with triple membrane-fitted quality assessment of GPCR models.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W387, doi. 10.1093/nar/gky429

By:

Miszta, Przemysław;
Pasznik, Paweł;
Jakowiecki, Jakub;
Sztyler, Agnieszka;
Latek, Dorota;
Filipek, Sławomir

Publication type:

Article

ezTag: tagging biomedical concepts via interactive learning.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W523, doi. 10.1093/nar/gky428

By:

Kwon, Dongseop;
Kim, Sun;
Wei, Chih-Hsuan;
Leaman, Robert;
Lu, Zhiyong

Publication type:

Article

SWISS-MODEL: homology modelling of protein structures and complexes.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W296, doi. 10.1093/nar/gky427

By:

Waterhouse, Andrew;
Bertoni, Martino;
Bienert, Stefan;
Studer, Gabriel;
Tauriello, Gerardo;
Gumienny, Rafal;
Heer, Florian T;
de Beer, Tjaart A P;
Rempfer, Christine;
Bordoli, Lorenza

Publication type:

Article

PSSMSearch: a server for modeling, visualization, proteome-wide discovery and annotation of protein motif specificity determinants.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W235, doi. 10.1093/nar/gky426

By:

Krystkowiak, Izabella;
Manguy, Jean;
Davey, Norman E

Publication type:

Article

CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W246, doi. 10.1093/nar/gky425

By:

Couvin, David;
Bernheim, Aude;
Toffano-Nioche, Claire;
Touchon, Marie;
Michalik, Juraj;
Néron, Bertrand;
Rocha, Eduardo P C;
Vergnaud, Gilles;
Gautheret, Daniel;
Pourcel, Christine

Publication type:

Article

FragFit: a web-application for interactive modeling of protein segments into cryo-EM density maps.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W310, doi. 10.1093/nar/gky424

By:

Tiemann, Johanna KS;
Rose, Alexander S;
Ismer, Jochen;
Darvish, Mitra D;
Hilal, Tarek;
Spahn, Christian MT;
Hildebrand, Peter W

Publication type:

Article

CellAtlasSearch: a scalable search engine for single cells.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W141, doi. 10.1093/nar/gky421

By:

Srivastava, Divyanshu;
Iyer, Arvind;
Kumar, Vibhor;
Sengupta, Debarka

Publication type:

Article

ComplexContact: a web server for inter-protein contact prediction using deep learning.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W432, doi. 10.1093/nar/gky420

By:

Zeng, Hong;
Wang, Sheng;
Zhou, Tianming;
Zhao, Feifeng;
Li, Xiufeng;
Wu, Qing;
Xu, Jinbo

Publication type:

Article

MISTIC2: comprehensive server to study coevolution in protein families.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W323, doi. 10.1093/nar/gky419

By:

Colell, Eloy A;
Iserte, Javier A;
Simonetti, Franco L;
Marino-Buslje, Cristina

Publication type:

Article

dbCAN2: a meta server for automated carbohydrate-active enzyme annotation.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W95, doi. 10.1093/nar/gky418

By:

Zhang, Han;
Yohe, Tanner;
Huang, Le;
Entwistle, Sarah;
Wu, Peizhi;
Yang, Zhenglu;
Busk, Peter K;
Xu, Ying;
Yin, Yanbin

Publication type:

Article

HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W356, doi. 10.1093/nar/gky417

By:

Sumbalova, Lenka;
Stourac, Jan;
Martinek, Tomas;
Bednar, David;
Damborsky, Jiri

Publication type:

Article

GlobAl Distribution of GEnetic Traits (GADGET) web server: polygenic trait scores worldwide.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W121, doi. 10.1093/nar/gky415

By:

Chande, Aroon T;
Wang, Lu;
Rishishwar, Lavanya;
Conley, Andrew B;
Norris, Emily T;
Valderrama-Aguirre, Augusto;
Jordan, I King

Publication type:

Article

GIANT 2.0: genome-scale integrated analysis of gene networks in tissues.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W65, doi. 10.1093/nar/gky408

By:

Wong, Aaron K;
Krishnan, Arjun;
Troyanskaya, Olga G

Publication type:

Article

GWAS4D: multidimensional analysis of context-specific regulatory variant for human complex diseases and traits.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W114, doi. 10.1093/nar/gky407

By:

Huang, Dandan;
Yi, Xianfu;
Zhang, Shijie;
Zheng, Zhanye;
Wang, Panwen;
Xuan, Chenghao;
Sham, Pak Chung;
Wang, Junwen;
Li, Mulin Jun

Publication type:

Article

Mutalisk: a web-based somatic MUTation AnaLyIS toolKit for genomic, transcriptional and epigenomic signatures.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W102, doi. 10.1093/nar/gky406

By:

Lee, Jongkeun;
Lee, Andy Jinseok;
Lee, June-Koo;
Park, Jongkeun;
Kwon, Youngoh;
Park, Seongyeol;
Chun, Hyonho;
Ju, Young Seok;
Hong, Dongwan

Publication type:

Article

WEGO 2.0: a web tool for analyzing and plotting GO annotations, 2018 update.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W71, doi. 10.1093/nar/gky400

By:

Ye, Jia;
Zhang, Yong;
Cui, Huihai;
Liu, Jiawei;
Wu, Yuqing;
Cheng, Yun;
Xu, Huixing;
Huang, Xingxin;
Li, Shengting;
Zhou, An

Publication type:

Article

SNPnexus: assessing the functional relevance of genetic variation to facilitate the promise of precision medicine.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W109, doi. 10.1093/nar/gky399

By:

Dayem Ullah, Abu Z;
Oscanoa, Jorge;
Wang, Jun;
Nagano, Ai;
Lemoine, Nicholas R;
Chelala, Claude

Publication type:

Article

HSYMDOCK: a docking web server for predicting the structure of protein homo-oligomers with Cn or Dn symmetry.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W423, doi. 10.1093/nar/gky398

By:

Yan, Yumeng;
Tao, Huanyu;
Huang, Sheng-You

Publication type:

Article

IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W329, doi. 10.1093/nar/gky384

By:

Mészáros, Bálint;
Erdős, Gábor;
Dosztányi, Zsuzsanna

Publication type:

Article

BAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W278, doi. 10.1093/nar/gky383

By:

van Heel, Auke J;
de Jong, Anne;
Song, Chunxu;
Viel, Jakob H;
Kok, Jan;
Kuipers, Oscar P

Publication type:

Article

gRINN: a tool for calculation of residue interaction energies and protein energy network analysis of molecular dynamics simulations.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W554, doi. 10.1093/nar/gky381

By:

Serçinoğlu, Onur;
Ozbek, Pemra

Publication type:

Article

CavityPlus: a web server for protein cavity detection with pharmacophore modelling, allosteric site identification and covalent ligand binding ability prediction.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W374, doi. 10.1093/nar/gky380

By:

Xu, Youjun;
Wang, Shiwei;
Hu, Qiwan;
Gao, Shuaishi;
Ma, Xiaomin;
Zhang, Weilin;
Shen, Yihang;
Chen, Fangjin;
Lai, Luhua;
Pei, Jianfeng

Publication type:

Article

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W537, doi. 10.1093/nar/gky379

By:

Afgan, Enis;
Baker, Dannon;
Batut, Bérénice;
van den Beek, Marius;
Bouvier, Dave;
Čech, Martin;
Chilton, John;
Clements, Dave;
Coraor, Nate;
Grüning, Björn A

Publication type:

Article

INTERSPIA: a web application for exploring the dynamics of protein-protein interactions among multiple species.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W89, doi. 10.1093/nar/gky378

By:

Kwon, Daehong;
Lee, Daehwan;
Kim, Juyeon;
Lee, Jongin;
Sim, Mikang;
Kim, Jaebum

Publication type:

Article

InterEvDock2: an expanded server for protein docking using evolutionary and biological information from homology models and multimeric inputs.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W408, doi. 10.1093/nar/gky377

By:

Quignot, Chloé;
Rey, Julien;
Yu, Jinchao;
Tufféry, Pierre;
Guerois, Raphaël;
Andreani, Jessica

Publication type:

Article

The Ocean Gene Atlas: exploring the biogeography of plankton genes online.

Published in:

Nucleic Acids Research, 2018, v. 46, n. W1, p. W289, doi. 10.1093/nar/gky376

By:

Villar, Emilie;
Vannier, Thomas;
Vernette, Caroline;
Lescot, Magali;
Cuenca, Miguelangel;
Alexandre, Aurélien;
Bachelerie, Paul;
Rosnet, Thomas;
Pelletier, Eric;
Sunagawa, Shinichi

Publication type:

Article