Works matching IS 03051048 AND DT 2020 AND VI 48 AND IP W1

Results: 80

Editorial: the 18th annual Nucleic Acids Research web server issue 2020.

Published in:: Nucleic Acids Research, 2020, v. 48, n. W1, p. W1, doi. 10.1093/nar/gkaa528
Publication type:: Article

miRNet 2.0: network-based visual analytics for miRNA functional analysis and systems biology.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W244, doi. 10.1093/nar/gkaa467

By:

Chang, Le;
Zhou, Guangyan;
Soufan, Othman;
Xia, Jianguo

Publication type:

Article

mirnaQC: a webserver for comparative quality control of miRNA-seq data.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W262, doi. 10.1093/nar/gkaa452

By:

Aparicio-Puerta, Ernesto;
Gómez-Martín, Cristina;
Giannoukakos, Stavros;
Medina, José María;
Marchal, Juan Antonio;
Hackenberg, Michael

Publication type:

Article

FATCAT 2.0: towards a better understanding of the structural diversity of proteins.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W60, doi. 10.1093/nar/gkaa443

By:

Li, Zhanwen;
Jaroszewski, Lukasz;
Iyer, Mallika;
Sedova, Mayya;
Godzik, Adam

Publication type:

Article

HomolWat: a web server tool to incorporate 'homologous' water molecules into GPCR structures.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W54, doi. 10.1093/nar/gkaa440

By:

Mayol, Eduardo;
García-Recio, Adrián;
Tiemann, Johanna K S;
Hildebrand, Peter W;
Guixà-González, Ramon;
Olivella, Mireia;
Cordomí, Arnau

Publication type:

Article

CReSCENT: CanceR Single Cell ExpressioN Toolkit.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W372, doi. 10.1093/nar/gkaa437

By:

Mohanraj, Suluxan;
Díaz-Mejía, J Javier;
Pham, Martin D;
Elrick, Hillary;
Husić, Mia;
Rashid, Shaikh;
Luo, Ping;
Bal, Prabnur;
Lu, Kevin;
Patel, Samarth;
Mahalanabis, Alaina;
Naidas, Alaine;
Christensen, Erik;
Croucher, Danielle;
Richards, Laura M;
Shooshtari, Parisa;
Brudno, Michael;
Ramani, Arun K;
Pugh, Trevor J

Publication type:

Article

piNET: a versatile web platform for downstream analysis and visualization of proteomics data.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W85, doi. 10.1093/nar/gkaa436

By:

Shamsaei, Behrouz;
Chojnacki, Szymon;
Pilarczyk, Marcin;
Najafabadi, Mehdi;
Niu, Wen;
Chen, Chuming;
Ross, Karen;
Matlock, Andrea;
Muhlich, Jeremy;
Chutipongtanate, Somchai;
Zheng, Jie;
Turner, John;
Vidović, Dušica;
Jaffe, Jake;
MacCoss, Michael;
Wu, Cathy;
Pillai, Ajay;
Ma'ayan, Avi;
Schürer, Stephan;
Kouril, Michal

Publication type:

Article

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2020 update.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W395, doi. 10.1093/nar/gkaa434

By:

Jalili, Vahid;
Afgan, Enis;
Gu, Qiang;
Clements, Dave;
Blankenberg, Daniel;
Goecks, Jeremy;
Taylor, James;
Nekrutenko, Anton

Publication type:

Article

Tox21BodyMap: a webtool to map chemical effects on the human body.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W472, doi. 10.1093/nar/gkaa433

By:

Borrel, Alexandre;
Auerbach, Scott S;
Houck, Keith A;
Kleinstreuer, Nicole C

Publication type:

Article

PaCRISPR: a server for predicting and visualizing anti-CRISPR proteins.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W348, doi. 10.1093/nar/gkaa432

By:

Wang, Jiawei;
Dai, Wei;
Li, Jiahui;
Xie, Ruopeng;
Dunstan, Rhys A;
Stubenrauch, Christopher;
Zhang, Yanju;
Lithgow, Trevor

Publication type:

Article

CVCDAP: an integrated platform for molecular and clinical analysis of cancer virtual cohorts.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W463, doi. 10.1093/nar/gkaa423

By:

Guan, Xiaoqing;
Cai, Meng;
Du, Yang;
Yang, Ence;
Ji, Jiafu;
Wu, Jianmin

Publication type:

Article

SYNERGxDB: an integrative pharmacogenomic portal to identify synergistic drug combinations for precision oncology.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W494, doi. 10.1093/nar/gkaa421

By:

Seo, Heewon;
Tkachuk, Denis;
Ho, Chantal;
Mammoliti, Anthony;
Rezaie, Aria;
Madani Tonekaboni, Seyed Ali;
Haibe-Kains, Benjamin

Publication type:

Article

SNPnexus: a web server for functional annotation of human genome sequence variation (2020 update).

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W185, doi. 10.1093/nar/gkaa420

By:

Oscanoa, Jorge;
Sivapalan, Lavanya;
Gadaleta, Emanuela;
Dayem Ullah, Abu Z;
Lemoine, Nicholas R;
Chelala, Claude

Publication type:

Article

mCSM-membrane: predicting the effects of mutations on transmembrane proteins.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W147, doi. 10.1093/nar/gkaa416

By:

Pires, Douglas E V;
Rodrigues, Carlos H M;
Ascher, David B

Publication type:

Article

RNAProbe: a web server for normalization and analysis of RNA structure probing data.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W292, doi. 10.1093/nar/gkaa396

By:

Wirecki, Tomasz K;
Merdas, Katarzyna;
Bernat, Agata;
Boniecki, Michał J;
Bujnicki, Janusz M;
Stefaniak, Filip

Publication type:

Article

NanoSPC: a scalable, portable, cloud compatible viral nanopore metagenomic data processing pipeline.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W366, doi. 10.1093/nar/gkaa413

By:

Xu, Yifei;
Yang-Turner, Fan;
Volk, Denis;
Crook, Derrick

Publication type:

Article

Fluxer: a web application to compute, analyze and visualize genome-scale metabolic flux networks.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W427, doi. 10.1093/nar/gkaa409

By:

Hari, Archana;
Lobo, Daniel

Publication type:

Article

PseudoChecker: an integrated online platform for gene inactivation inference.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W321, doi. 10.1093/nar/gkaa408

By:

Alves, Luís Q;
Ruivo, Raquel;
Fonseca, Miguel M;
Lopes-Marques, Mónica;
Ribeiro, Pedro;
Castro, L Filipe C

Publication type:

Article

TIMER2.0 for analysis of tumor-infiltrating immune cells.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W509, doi. 10.1093/nar/gkaa407

By:

Li, Taiwen;
Fu, Jingxin;
Zeng, Zexian;
Cohen, David;
Li, Jing;
Chen, Qianming;
Li, Bo;
Liu, X Shirley

Publication type:

Article

webPSN v2.0: a webserver to infer fingerprints of structural communication in biomacromolecules.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W94, doi. 10.1093/nar/gkaa397

By:

Felline, Angelo;
Seeber, Michele;
Fanelli, Francesca

Publication type:

Article

ASAP 2020 update: an open, scalable and interactive web-based portal for (single-cell) omics analyses.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W403, doi. 10.1093/nar/gkaa412

By:

David, Fabrice P A;
Litovchenko, Maria;
Deplancke, Bart;
Gardeux, Vincent

Publication type:

Article

RiboToolkit: an integrated platform for analysis and annotation of ribosome profiling data to decode mRNA translation at codon resolution.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W218, doi. 10.1093/nar/gkaa395

By:

Liu, Qi;
Shvarts, Tanya;
Sliz, Piotr;
Gregory, Richard I

Publication type:

Article

IRIS3: integrated cell-type-specific regulon inference server from single-cell RNA-Seq.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W275, doi. 10.1093/nar/gkaa394

By:

Ma, Anjun;
Wang, Cankun;
Chang, Yuzhou;
Brennan, Faith H;
McDermaid, Adam;
Liu, Bingqiang;
Zhang, Chi;
Popovich, Phillip G;
Ma, Qin

Publication type:

Article

ShiftCrypt: a web server to understand and biophysically align proteins through their NMR chemical shift values.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W36, doi. 10.1093/nar/gkaa391

By:

Orlando, Gabriele;
Raimondi, Daniele;
Kagami, Luciano Porto;
Vranken, Wim F

Publication type:

Article

ToxicoDB: an integrated database to mine and visualize large-scale toxicogenomic datasets.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W455, doi. 10.1093/nar/gkaa390

By:

Nair, Sisira Kadambat;
Eeles, Christopher;
Ho, Chantal;
Beri, Gangesh;
Yoo, Esther;
Tkachuk, Denis;
Tang, Amy;
Nijrabi, Parwaiz;
Smirnov, Petr;
Seo, Heewon;
Jennen, Danyel;
Haibe-Kains, Benjamin

Publication type:

Article

mmCSM-AB: guiding rational antibody engineering through multiple point mutations.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W125, doi. 10.1093/nar/gkaa389

By:

Myung, Yoochan;
Pires, Douglas E V;
Ascher, David B

Publication type:

Article

3D-GNOME 2.0: a three-dimensional genome modeling engine for predicting structural variation-driven alterations of chromatin spatial structure in the human genome.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W170, doi. 10.1093/nar/gkaa388

By:

Wlasnowolski, Michal;
Sadowski, Michal;
Czarnota, Tymon;
Jodkowska, Karolina;
Szalaj, Przemyslaw;
Tang, Zhonghui;
Ruan, Yijun;
Plewczynski, Dariusz

Publication type:

Article

mRNALoc: a novel machine-learning based in-silico tool to predict mRNA subcellular localization.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W239, doi. 10.1093/nar/gkaa385

By:

Garg, Anjali;
Singhal, Neelja;
Kumar, Ravindra;
Kumar, Manish

Publication type:

Article

EpiRegio: analysis and retrieval of regulatory elements linked to genes.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W193, doi. 10.1093/nar/gkaa382

By:

Baumgarten, Nina;
Hecker, Dennis;
Karunanithi, Sivarajan;
Schmidt, Florian;
List, Markus;
Schulz, Marcel H

Publication type:

Article

NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W449, doi. 10.1093/nar/gkaa379

By:

Reynisson, Birkir;
Alvarez, Bruno;
Paul, Sinu;
Peters, Bjoern;
Nielsen, Morten

Publication type:

Article

InterPred: a webtool to predict chemical autofluorescence and luminescence interference.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W586, doi. 10.1093/nar/gkaa378

By:

Borrel, Alexandre;
Mansouri, Kamel;
Nolte, Sue;
Saddler, Trey;
Conway, Mike;
Schmitt, Charles;
Kleinstreuer, Nicole C

Publication type:

Article

Conserved unique peptide patterns (CUPP) online platform: peptide-based functional annotation of carbohydrate active enzymes.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W110, doi. 10.1093/nar/gkaa375

By:

Barrett, Kristian;
Hunt, Cameron J;
Lange, Lene;
Meyer, Anne S

Publication type:

Article

ARTS 2.0: feature updates and expansion of the Antibiotic Resistant Target Seeker for comparative genome mining.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W546, doi. 10.1093/nar/gkaa374

By:

Mungan, Mehmet Direnç;
Alanjary, Mohammad;
Blin, Kai;
Weber, Tilmann;
Medema, Marnix H;
Ziemert, Nadine

Publication type:

Article

EnzymeMiner: automated mining of soluble enzymes with diverse structures, catalytic properties and stabilities.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W104, doi. 10.1093/nar/gkaa372

By:

Hon, Jiri;
Borko, Simeon;
Stourac, Jan;
Prokop, Zbynek;
Zendulka, Jaroslav;
Bednar, David;
Martinek, Tomas;
Damborsky, Jiri

Publication type:

Article

Oviz-Bio: a web-based platform for interactive cancer genomics data visualization.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W415, doi. 10.1093/nar/gkaa371

By:

Jia, Wenlong;
Li, Hechen;
Li, Shiying;
Chen, Lingxi;
Li, Shuai Cheng

Publication type:

Article

AnnoLnc2: the one-stop portal to systematically annotate novel lncRNAs for human and mouse.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W230, doi. 10.1093/nar/gkaa368

By:

Ke, Lan;
Yang, De-Chang;
Wang, Yu;
Ding, Yang;
Gao, Ge

Publication type:

Article

Atomic Charge Calculator II: web-based tool for the calculation of partial atomic charges.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W591, doi. 10.1093/nar/gkaa367

By:

Raček, Tomáš;
Schindler, Ondřej;
Toušek, Dominik;
Horský, Vladimír;
Berka, Karel;
Koča, Jaroslav;
Svobodová, Radka

Publication type:

Article

TopMatch-web: pairwise matching of large assemblies of protein and nucleic acid chains in 3D.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W31, doi. 10.1093/nar/gkaa366

By:

Wiederstein, Markus;
Sippl, Manfred J

Publication type:

Article

FGviewer: an online visualization tool for functional features of human fusion genes.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W313, doi. 10.1093/nar/gkaa364

By:

Kim, Pora;
Yiya, Ke;
Zhou, Xiaobo

Publication type:

Article

InteractomeSeq: a web server for the identification and profiling of domains and epitopes from phage display and next generation sequencing data.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W200, doi. 10.1093/nar/gkaa363

By:

Puccio, Simone;
Grillo, Giorgio;
Consiglio, Arianna;
Soluri, Maria Felicia;
Sblattero, Daniele;
Cotella, Diego;
Santoro, Claudio;
Liuni, Sabino;
Bellis, Gianluca De;
Lugli, Enrico;
Peano, Clelia;
Licciulli, Flavio

Publication type:

Article

ARIAweb: a server for automated NMR structure calculation.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W41, doi. 10.1093/nar/gkaa362

By:

Allain, Fabrice;
Mareuil, Fabien;
Ménager, Hervé;
Nilges, Michael;
Bardiaux, Benjamin

Publication type:

Article

MISCAST: MIssense variant to protein StruCture Analysis web SuiTe.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W132, doi. 10.1093/nar/gkaa361

By:

Iqbal, Sumaiya;
Hoksza, David;
Pérez-Palma, Eduardo;
May, Patrick;
Jespersen, Jakob B;
Ahmed, Shehab S;
Rifat, Zaara T;
Heyne, Henrike O;
Rahman, M Sohel;
Cottrell, Jeffrey R;
Wagner, Florence F;
Daly, Mark J;
Campbell, Arthur J;
Lal, Dennis

Publication type:

Article

AWSEM-Suite: a protein structure prediction server based on template-guided, coevolutionary-enhanced optimized folding landscapes.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W25, doi. 10.1093/nar/gkaa356

By:

Jin, Shikai;
Contessoto, Vinicius G;
Chen, Mingchen;
Schafer, Nicholas P;
Lu, Wei;
Chen, Xun;
Bueno, Carlos;
Hajitaheri, Arya;
Sirovetz, Brian J;
Davtyan, Aram;
Papoian, Garegin A;
Tsai, Min-Yeh;
Wolynes, Peter G

Publication type:

Article

AcrFinder: genome mining anti-CRISPR operons in prokaryotes and their viruses.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W358, doi. 10.1093/nar/gkaa351

By:

Yi, Haidong;
Huang, Le;
Yang, Bowen;
Gomez, Javi;
Zhang, Han;
Yin, Yanbin

Publication type:

Article

CausalMGM: an interactive web-based causal discovery tool.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W597, doi. 10.1093/nar/gkaa350

By:

Ge, Xiaoyu;
Raghu, Vineet K;
Chrysanthis, Panos K;
Benos, Panayiotis V

Publication type:

Article

CoCoCoNet: conserved and comparative co-expression across a diverse set of species.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W566, doi. 10.1093/nar/gkaa348

By:

Lee, John;
Shah, Manthan;
Ballouz, Sara;
Crow, Megan;
Gillis, Jesse

Publication type:

Article

PlaToLoCo: the first web meta-server for visualization and annotation of low complexity regions in proteins.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W77, doi. 10.1093/nar/gkaa339

By:

Jarnot, Patryk;
Ziemska-Legiecka, Joanna;
Dobson, Laszlo;
Merski, Matthew;
Mier, Pablo;
Andrade-Navarro, Miguel A;
Hancock, John M;
Dosztányi, Zsuzsanna;
Paladin, Lisanna;
Necci, Marco;
Piovesan, Damiano;
Tosatto, Silvio C E;
Promponas, Vasilis J;
Grynberg, Marcin;
Gruca, Aleksandra

Publication type:

Article

AlloSigMA 2: paving the way to designing allosteric effectors and to exploring allosteric effects of mutations.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W116, doi. 10.1093/nar/gkaa338

By:

Tan, Zhen Wah;
Guarnera, Enrico;
Tee, Wei-Ven;
Berezovsky, Igor N

Publication type:

Article

TeamTat: a collaborative text annotation tool.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W5, doi. 10.1093/nar/gkaa333

By:

Islamaj, Rezarta;
Kwon, Dongseop;
Kim, Sun;
Lu, Zhiyong

Publication type:

Article

BIOMEX: an interactive workflow for (single cell) omics data interpretation and visualization.

Published in:

Nucleic Acids Research, 2020, v. 48, n. W1, p. W385, doi. 10.1093/nar/gkaa332

By:

Taverna, Federico;
Goveia, Jermaine;
Karakach, Tobias K;
Khan, Shawez;
Rohlenova, Katerina;
Treps, Lucas;
Subramanian, Abhishek;
Schoonjans, Luc;
Dewerchin, Mieke;
Eelen, Guy;
Carmeliet, Peter

Publication type:

Article