Works matching IS 03051048 AND DT 2019 AND VI 47 AND IP W1

Results: 95

Editorial: The 17th Annual Nucleic Acids Research Web Server Issue 2019.

Published in:: 2019
Publication type:: Editorial

RNAmod: an integrated system for the annotation of mRNA modifications.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W548, doi. 10.1093/nar/gkz479

By:

Liu, Qi;
Gregory, Richard I

Publication type:

Article

PatchSearch: a web server for off-target protein identification.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W365, doi. 10.1093/nar/gkz478

By:

Rey, Julien;
Rasolohery, Inès;
Tufféry, Pierre;
Guyon, Frédéric;
Moroy, Gautier

Publication type:

Article

MTR-Viewer: identifying regions within genes under purifying selection.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W121, doi. 10.1093/nar/gkz457

By:

Silk, Michael;
Petrovski, Slavé;
Ascher, David B

Publication type:

Article

2StrucCompare: a webserver for visualizing small but noteworthy differences between protein tertiary structures through interrogation of the secondary structure content.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W477, doi. 10.1093/nar/gkz456

By:

Drew, Elliot D;
Janes, Robert W

Publication type:

Article

IEDB-AR: immune epitope database—analysis resource in 2019.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W502, doi. 10.1093/nar/gkz452

By:

Dhanda, Sandeep Kumar;
Mahajan, Swapnil;
Paul, Sinu;
Yan, Zhen;
Kim, Haeuk;
Jespersen, Martin Closter;
Jurtz, Vanessa;
Andreatta, Massimo;
Greenbaum, Jason A;
Marcatili, Paolo;
Sette, Alessandro;
Nielsen, Morten;
Peters, Bjoern

Publication type:

Article

IAMBEE: a web-service for the identification of adaptive pathways from parallel evolved clonal populations.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W151, doi. 10.1093/nar/gkz451

By:

Perez-Romero, Camilo Andres;
Weytjens, Bram;
Decap, Dries;
Swings, Toon;
Michiels, Jan;
De Maeyer, Dries;
Marchal, Kathleen

Publication type:

Article

ImmuneRegulation: a web-based tool for identifying human immune regulatory elements.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W142, doi. 10.1093/nar/gkz450

By:

Kalayci, Selim;
Selvan, Myvizhi Esai;
Ramos, Irene;
Cotsapas, Chris;
Harris, Eva;
Kim, Eun-Young;
Montgomery, Ruth R;
Poland, Gregory;
Pulendran, Bali;
Tsang, John S;
Klein, Robert J;
Gümüş, Zeynep H

Publication type:

Article

ChEA3: transcription factor enrichment analysis by orthogonal omics integration.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W212, doi. 10.1093/nar/gkz446

By:

Keenan, Alexandra B;
Torre, Denis;
Lachmann, Alexander;
Leong, Ariel K;
Wojciechowicz, Megan L;
Utti, Vivian;
Jagodnik, Kathleen M;
Kropiwnicki, Eryk;
Wang, Zichen;
Ma'ayan, Avi

Publication type:

Article

MEXPRESS update 2019.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W561, doi. 10.1093/nar/gkz445

By:

Koch, Alexander;
Jeschke, Jana;
Van Criekinge, Wim;
van Engeland, Manon;
De Meyer, Tim

Publication type:

Article

BioUML: an integrated environment for systems biology and collaborative analysis of biomedical data.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W225, doi. 10.1093/nar/gkz440

By:

Kolpakov, Fedor;
Akberdin, Ilya;
Kashapov, Timur;
Kiselev, llya;
Kolmykov, Semyon;
Kondrakhin, Yury;
Kutumova, Elena;
Mandrik, Nikita;
Pintus, Sergey;
Ryabova, Anna;
Sharipov, Ruslan;
Yevshin, Ivan;
Kel, Alexander

Publication type:

Article

tRNAviz: explore and visualize tRNA sequence features.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W542, doi. 10.1093/nar/gkz438

By:

Lin, Brian Y;
Chan, Patricia P;
Lowe, Todd M

Publication type:

Article

ORVAL: a novel platform for the prediction and exploration of disease-causing oligogenic variant combinations.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W93, doi. 10.1093/nar/gkz437

By:

Renaux, Alexandre;
Papadimitriou, Sofia;
Versbraegen, Nassim;
Nachtegael, Charlotte;
Boutry, Simon;
Nowé, Ann;
Smits, Guillaume;
Lenaerts, Tom

Publication type:

Article

GEPIA2: an enhanced web server for large-scale expression profiling and interactive analysis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W556, doi. 10.1093/nar/gkz430

By:

Tang, Zefang;
Kang, Boxi;
Li, Chenwei;
Chen, Tianxiang;
Zhang, Zemin

Publication type:

Article

BEERE: a web server for biomedical entity expansion, ranking and explorations.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W578, doi. 10.1093/nar/gkz428

By:

Yue, Zongliang;
Willey, Christopher D;
Hjelmeland, Anita B;
Chen, Jake Y

Publication type:

Article

EpiAlignment: alignment with both DNA sequence and epigenomic data.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W11, doi. 10.1093/nar/gkz426

By:

Lu, Jia;
Cao, Xiaoyi;
Zhong, Sheng

Publication type:

Article

M1CR0B1AL1Z3R—a user-friendly web server for the analysis of large-scale microbial genomics data.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W88, doi. 10.1093/nar/gkz423

By:

Avram, Oren;
Rapoport, Dana;
Portugez, Shir;
Pupko, Tal

Publication type:

Article

PrankWeb: a web server for ligand binding site prediction and visualization.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W345, doi. 10.1093/nar/gkz424

By:

Jendele, Lukas;
Krivak, Radoslav;
Skoda, Petr;
Novotny, Marian;
Hoksza, David

Publication type:

Article

web-rMKL: a web server for dimensionality reduction and sample clustering of multi-view data based on unsupervised multiple kernel learning.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W605, doi. 10.1093/nar/gkz422

By:

Röder, Benedict;
Kersten, Nicolas;
Herr, Marius;
Speicher, Nora K;
Pfeifer, Nico

Publication type:

Article

SEPPA 3.0—enhanced spatial epitope prediction enabling glycoprotein antigens.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W388, doi. 10.1093/nar/gkz413

By:

Zhou, Chen;
Chen, Zikun;
Zhang, Lu;
Yan, Deyu;
Mao, Tiantian;
Tang, Kailin;
Qiu, Tianyi;
Cao, Zhiwei

Publication type:

Article

Fido-SNP: the first webserver for scoring the impact of single nucleotide variants in the dog genome.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W136, doi. 10.1093/nar/gkz420

By:

Capriotti, Emidio;
Montanucci, Ludovica;
Profiti, Giuseppe;
Rossi, Ivan;
Giannuzzi, Diana;
Aresu, Luca;
Fariselli, Piero

Publication type:

Article

MERMAID: dedicated web server to prepare and run coarse-grained membrane protein dynamics.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W456, doi. 10.1093/nar/gkz416

By:

Damre, Mangesh;
Marchetto, Alessandro;
Giorgetti, Alejandro

Publication type:

Article

sRNAbench and sRNAtoolbox 2019: intuitive fast small RNA profiling and differential expression.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W530, doi. 10.1093/nar/gkz415

By:

Aparicio-Puerta, Ernesto;
Lebrón, Ricardo;
Rueda, Antonio;
Gómez-Martín, Cristina;
Giannoukakos, Stavros;
Jaspez, David;
Medina, José María;
Zubkovic, Andreja;
Jurak, Igor;
Fromm, Bastian;
Marchal, Juan Antonio;
Oliver, José;
Hackenberg, Michael

Publication type:

Article

Pergola-web: a web server for the visualization and analysis of longitudinal behavioral data using repurposed genomics tools and standards.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W600, doi. 10.1093/nar/gkz414

By:

Espinosa-Carrasco, Jose;
Pulido, Toni Hermoso;
Erb, Ionas;
Dierssen, Mara;
Ponomarenko, Julia;
Notredame, Cedric

Publication type:

Article

ResponseNet v.3: revealing signaling and regulatory pathways connecting your proteins and genes across human tissues.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W242, doi. 10.1093/nar/gkz421

By:

Basha, Omer;
Mauer, Omry;
Simonovsky, Eyal;
Shpringer, Rotem;
Yeger-Lotem, Esti

Publication type:

Article

HNADOCK: a nucleic acid docking server for modeling RNA/DNA–RNA/DNA 3D complex structures.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W35, doi. 10.1093/nar/gkz412

By:

He, Jiahua;
Wang, Jun;
Tao, Huanyu;
Xiao, Yi;
Huang, Sheng-You

Publication type:

Article

Simple ClinVar: an interactive web server to explore and retrieve gene and disease variants aggregated in ClinVar database.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W99, doi. 10.1093/nar/gkz411

By:

Pérez-Palma, Eduardo;
Gramm, Marie;
Nürnberg, Peter;
May, Patrick;
Lal, Dennis

Publication type:

Article

LnCompare: gene set feature analysis for human long non-coding RNAs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W523, doi. 10.1093/nar/gkz410

By:

Carlevaro-Fita, Joana;
Liu, Leibo;
Zhou, Yuan;
Zhang, Shan;
Chouvardas, Panagiotis;
Johnson, Rory;
Li, Jianwei

Publication type:

Article

VOLPES: an interactive web-based tool for visualizing and comparing physicochemical properties of biological sequences.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W632, doi. 10.1093/nar/gkz407

By:

Bartonek, Lukas;
Zagrovic, Bojan

Publication type:

Article

Gene Sculpt Suite: a set of tools for genome editing.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W175, doi. 10.1093/nar/gkz405

By:

Mann, Carla M;
Martínez-Gálvez, Gabriel;
Welker, Jordan M;
Wierson, Wesley A;
Ata, Hirotaka;
Almeida, Maira P;
Clark, Karl J;
Essner, Jeffrey J;
McGrail, Maura;
Ekker, Stephen C;
Dobbs, Drena

Publication type:

Article

DNAvisualization.org: a serverless web tool for DNA sequence visualization.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W20, doi. 10.1093/nar/gkz404

By:

Lee, Benjamin D;
Timony, Michael A;
Ruiz, Pablo

Publication type:

Article

DaReUS-Loop: a web server to model multiple loops in homology models.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W423, doi. 10.1093/nar/gkz403

By:

Karami, Yasaman;
Rey, Julien;
Postic, Guillaume;
Murail, Samuel;
Tufféry, Pierre;
de Vries, Sjoerd J

Publication type:

Article

PSICA: a fast and accurate web service for protein model quality analysis.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W443, doi. 10.1093/nar/gkz402

By:

Wang, Wenbo;
Li, Zhaoyu;
Wang, Junlin;
Xu, Dong;
Shang, Yi

Publication type:

Article

WebGestalt 2019: gene set analysis toolkit with revamped UIs and APIs.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W199, doi. 10.1093/nar/gkz401

By:

Liao, Yuxing;
Wang, Jing;
Jaehnig, Eric J;
Shi, Zhiao;
Zhang, Bing

Publication type:

Article

CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W516, doi. 10.1093/nar/gkz400

By:

Guo, Jin-Cheng;
Fang, Shuang-Sang;
Wu, Yang;
Zhang, Jian-Hua;
Chen, Yang;
Liu, Jing;
Wu, Bo;
Wu, Jia-Rui;
Li, En-Min;
Xu, Li-Yan;
Sun, Liang;
Zhao, Yi

Publication type:

Article

NAPS update: network analysis of molecular dynamics data and protein–nucleic acid complexes.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W462, doi. 10.1093/nar/gkz399

By:

Chakrabarty, Broto;
Naganathan, Varun;
Garg, Kanak;
Agarwal, Yash;
Parekh, Nita

Publication type:

Article

EPIC-TABSAT: analysis tool for targeted bisulfite sequencing experiments and array-based methylation studies.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W166, doi. 10.1093/nar/gkz398

By:

Krainer, Julie;
Weinhäusel, Andreas;
Hanak, Karel;
Pulverer, Walter;
Özen, Seza;
Vierlinger, Klemens;
Pabinger, Stephan

Publication type:

Article

HawkDock: a web server to predict and analyze the protein–protein complex based on computational docking and MM/GBSA.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W322, doi. 10.1093/nar/gkz397

By:

Weng, Gaoqi;
Wang, Ercheng;
Wang, Zhe;
Liu, Hui;
Zhu, Feng;
Li, Dan;
Hou, Tingjun

Publication type:

Article

Web 3DNA 2.0 for the analysis, visualization, and modeling of 3D nucleic acid structures.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W26, doi. 10.1093/nar/gkz394

By:

Li, Shuxiang;
Olson, Wilma K;
Lu, Xiang-Jun

Publication type:

Article

Geneshot: search engine for ranking genes from arbitrary text queries.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W571, doi. 10.1093/nar/gkz393

By:

Lachmann, Alexander;
Schilder, Brian M;
Wojciechowicz, Megan L;
Torre, Denis;
Kuleshov, Maxim V;
Keenan, Alexandra B;
Ma'ayan, Avi

Publication type:

Article

PRECOG: PREdicting COupling probabilities of G-protein coupled receptors.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W395, doi. 10.1093/nar/gkz392

By:

Singh, Gurdeep;
Inoue, Asuka;
Gutkind, J Silvio;
Russell, Robert B;
Raimondi, Francesco

Publication type:

Article

Drug ReposER: a web server for predicting similar amino acid arrangements to known drug binding interfaces for potential drug repositioning.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W350, doi. 10.1093/nar/gkz391

By:

Ab Ghani, Nur Syatila;
Ramlan, Effirul Ikhwan;
Firdaus-Raih, Mohd

Publication type:

Article

ProSNEx: a web-based application for exploration and analysis of protein structures using network formalism.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W471, doi. 10.1093/nar/gkz390

By:

Aydınkal, Rasim Murat;
Serçinoğlu, Onur;
Ozbek, Pemra

Publication type:

Article

PubTator central: automated concept annotation for biomedical full text articles.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W587, doi. 10.1093/nar/gkz389

By:

Wei, Chih-Hsuan;
Allot, Alexis;
Leaman, Robert;
Lu, Zhiyong

Publication type:

Article

NetGO: improving large-scale protein function prediction with massive network information.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W379, doi. 10.1093/nar/gkz388

By:

You, Ronghui;
Yao, Shuwei;
Xiong, Yi;
Huang, Xiaodi;
Sun, Fengzhu;
Mamitsuka, Hiroshi;
Zhu, Shanfeng

Publication type:

Article

Yvis: antibody high-density alignment visualization and analysis platform with an integrated database.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W490, doi. 10.1093/nar/gkz387

By:

Carvalho, Milene B;
Molina, Franck;
Felicori, Liza F

Publication type:

Article

Doc2Hpo: a web application for efficient and accurate HPO concept curation.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W566, doi. 10.1093/nar/gkz386

By:

Liu, Cong;
Peres Kury, Fabricio Sampaio;
Li, Ziran;
Ta, Casey;
Wang, Kai;
Weng, Chunhua

Publication type:

Article

Yosshi: a web-server for disulfide engineering by bioinformatic analysis of diverse protein families.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W308, doi. 10.1093/nar/gkz385

By:

Suplatov, Dmitry;
Timonina, Daria;
Sharapova, Yana;
Švedas, Vytas

Publication type:

Article

LOMETS2: improved meta-threading server for fold-recognition and structure-based function annotation for distant-homology proteins.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W429, doi. 10.1093/nar/gkz384

By:

Zheng, Wei;
Zhang, Chengxin;
Wuyun, Qiqige;
Pearce, Robin;
Li, Yang;
Zhang, Yang

Publication type:

Article

mCSM-PPI2: predicting the effects of mutations on protein–protein interactions.

Published in:

Nucleic Acids Research, 2019, v. 47, n. W1, p. W338, doi. 10.1093/nar/gkz383

By:

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

Publication type:

Article