Works in Database: The Journal of Biological Databases & Curation, 2015, Vol 2015

Results: 118

Biocuration with insufficient resources and fixed timelines.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav116

By:

Rodriguez-Esteban, Raul

Publication type:

Article

LymPHOS 2.0: an update of a phosphosite database of primary human T cells.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav115

By:

Tien Dung Nguyen;
Vidal-Cortes, Oriol;
Gallardo, Oscar;
Abian, Joaquin;
Carrascal, Montserrat

Publication type:

Article

HitPredict version 4: comprehensive reliability scoring of physical protein–protein interactions from more than 100 species.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav117

By:

López, Yosvany;
Nakai, Kenta;
Patil, Ashwini

Publication type:

Article

Kiwifruit Information Resource (KIR): a comparative platform for kiwifruit genomics.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav113

By:

Junyang Yue;
Jian Liu;
Rongjun Ban;
Wei Tang;
Lin Deng;
Zhangjun Fei;
Yongsheng Liu

Publication type:

Article

SBMDb: first whole genome putative microsatellite DNA marker database of sugarbeet for bioenergy and industrial applications.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav111

By:

Iquebal, Mir Asif;
Jaiswal, Sarika;
Angadi, U. B.;
Sablok, Gaurav;
Arora, Vasu;
Kumar, Sunil;
Rai, Anil;
Kumar, Dinesh

Publication type:

Article

ONRLDB—manually curated database of experimentally validated ligands for orphan nuclear receptors: insights into new drug discovery.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav112

By:

Nanduri, Ravikanth;
Bhutani, Isha;
Somavarapu, Arun Kumar;
Mahajan, Sahil;
Parkesh, Raman;
Gupta, Pawan

Publication type:

Article

PhenoMiner: from text to a database of phenotypes associated with OMIM diseases.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav104

By:

Collier, Nigel;
Groza, Tudor;
Smedley, Damian;
Robinson, Peter N.;
Oellrich, Anika;
Rebholz-Schuhmann, Dietrich

Publication type:

Article

Brassica database (BRAD) version 2.0: integrating and mining Brassicaceae species genomic resources.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav093

By:

Xiaobo Wang;
Jian Wu;
Jianli Liang;
Feng Cheng;
Xiaowu Wang

Publication type:

Article

ERAIZDA: a model for holistic annotation of animal infectious and zoonotic diseases.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav110

By:

Buza, Teresia M.;
Jack, Sherman W.;
Kirunda, Halid;
Khaitsa, Margaret L.;
Lawrence, Mark L.;
Pruett, Stephen;
Peterson, Daniel G.

Publication type:

Article

MAPanalyzer: a novel online tool for analyzing microtubule-associated proteins.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav108

By:

Yuan Zhou;
Shiping Yang;
Tonglin Mao;
Ziding Zhang

Publication type:

Article

Corrigendum: Automated semantic annotation of rare disease cases: a case study.

Published in:: Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav107
Publication type:: Article

SymbioGenomesDB: a database for the integration and access to knowledge on host–symbiont relationships.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav109

By:

Reyes-Prieto, Mariana;
Vargas-Chávez, Carlos;
Latorre, Amparo;
Moya, Andrés

Publication type:

Article

Differential ligand-signaling network of CCL19/CCL21-CCR7 system.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav106

By:

Raju, Rajesh;
Gadakh, Sachin;
Gopal, Priyanka;
George, Bijesh;
Advani, Jayshree;
Soman, Sowmya;
Prasad, T. S. K.;
Girijadevi, Reshmi

Publication type:

Article

Developing the eHistology Atlas.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav105

By:

Richardson, Lorna;
Graham, Liz;
Moss, Julie;
Burton, Nick;
Roochun, Yogmatee;
Armit, Chris;
Baldock, Richard A.

Publication type:

Article

NeuroTransDB: highly curated and structured transcriptomic metadata for neurodegenerative diseases.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav099

By:

Bagewadi, Shweta;
Adhikari, Subash;
Dhrangadhariya, Anjani;
Irin, Afroza Khanam;
Ebeling, Christian;
Namasivayam, Aishwarya Alex;
Page, Matthew;
Hofmann-Apitius, Martin;
Senger, Philipp

Publication type:

Article

BaMBa: towards the integrated management of Brazilian marine environmental data.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav088

By:

Milet Meirelles, Pedro;
Gadelha Jr., Luiz M. R.;
Bastos Francini-Filho, Ronaldo;
Leão de Moura, Rodrigo;
Menezes Amado-Filho, Gilberto;
Cardoso Bastos, Alex;
Pinheiro da Rocha Paranhos, Rodolfo;
Eduardo Rezende, Carlos;
Swings, Jean;
Siegle, Eduardo;
Asp Neto, Nils Edvin;
Neumann Leitão, Sigrid;
Coutinho, Ricardo;
Mattoso, Marta;
Salomon, Paulo S.;
Valle, Rogério A. B.;
Crespo Pereira, Renato;
Henrique Kruger, Ricardo;
Thompson, Cristiane;
Thompson, Fabiano L.

Publication type:

Article

WaspAtlas: a Nasonia vitripennis gene database and analysis platform.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav103

By:

Davies, Nathaniel J.;
Tauber, Eran

Publication type:

Article

ProPepper: a curated database for identification and analysis of peptide and immune-responsive epitope composition of cereal grain protein families.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav100

By:

Juhász, Angéla;
Haraszi, Réka;
Maulis, Csaba

Publication type:

Article

CRCDA—Comprehensive resources for cancer NGS data analysis.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav092

By:

Thangam, Manonanthini;
Gopal, Ramesh Kumar

Publication type:

Article

MtiBase: a database for decoding microRNA target sites located within CDS and 5'UTR regions from CLIP-Seq and expression profile datasets.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav102

By:

Zhi-Wei Guo;
Chen Xie;
Jian-Rong Yang;
Jun-Hao Li;
Jian-Hua Yang;
Limin Zheng

Publication type:

Article

Sample data processing in an additive and reproducible taxonomic workflow by using character data persistently linked to preserved individual specimens.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav094

By:

Kilian, Norbert;
Henning, Tilo;
Plitzner, Patrick;
Müller, Andreas;
Güntsch, Anton;
Stöver, Ben C.;
Müller, Kai F.;
Berendsohn, Walter G.;
Borsch, Thomas

Publication type:

Article

ChloroMitoSSRDB 2.00: more genomes, more repeats, unifying SSRs search patterns and on-the-fly repeat detection.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav084

By:

Sablok, Gaurav;
Raju, G. V. Padma;
Mudunuri, Suresh B.;
Prabha, Ratna;
Singh, Dhananjaya P.;
Baev, Vesselin;
Yahubyan, Galina;
Ralph, Peter J.;
La Porta, Nicola

Publication type:

Article

miRSponge: a manually curated database for experimentally supported miRNA sponges and ceRNAs.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav098

By:

Peng Wang;
Hui Zhi;
Yunpeng Zhang;
Yue Liu;
Jizhou Zhang;
Yue Gao;
Maoni Guo;
Shangwei Ning;
Xia Li

Publication type:

Article

MGDB: a comprehensive database of genes involved in melanoma.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav097

By:

Di Zhang;
Rongrong Zhu;
Hanqian Zhang;
Chun-Hou Zheng;
Junfeng Xia

Publication type:

Article

JRC GMO-Amplicons: a collection of nucleic acid sequences related to genetically modified organisms.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav101

By:

Petrillo, Mauro;
Angers-Loustau, Alexandre;
Henriksson, Peter;
Bonfini, Laura;
Patak, Alex;
Kreysa, Joachim

Publication type:

Article

Comprehensive comparative homeobox gene annotation in human and mouse.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav091

By:

Wilming, Laurens G.;
Boychenko, Veronika;
Harrow, Jennifer L.

Publication type:

Article

RegNetwork: an integrated database of transcriptional and post-transcriptional regulatory networks in human and mouse.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav095

By:

Zhi-Ping Liu;
Canglin Wu;
Hongyu Miao;
Hulin Wu

Publication type:

Article

SORTA: a system for ontology-based re-coding and technical annotation of biomedical phenotype data.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav089

By:

Chao Pang;
Sollie, Annet;
Sijtsma, Anna;
Hendriksen, Dennis;
Charbon, Bart;
de Haan, Mark;
de Boer, Tommy;
Kelpin, Fleur;
Jetten, Jonathan;
van der Velde, Joeri K.;
Smidt, Nynke;
Sijmons, Rolf;
Hillege, Hans;
Swertz, Morris A.

Publication type:

Article

FARE-CAFE: a database of functional and regulatory elements of cancer-associated fusion events.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav086

By:

Korla, Praveen Kumar;
Jack Cheng;
Chien-Hung Huang;
Tsai, Jeffrey J. P.;
Yu-Hsuan Liu;
Kurubanjerdjit, Nilubon;
Wen-Tsong Hsieh;
Huey-Yi Chen;
Ka-Lok Ng

Publication type:

Article

Deep Question Answering for protein annotation.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav081

By:

Gobeill, Julien;
Gaudinat, Arnaud;
Pasche, Emilie;
Vishnyakova, Dina;
Gaudet, Pascale;
Bairoch, Amos;
Ruch, Patrick

Publication type:

Article

Connecting proteins with drug-like compounds: Open source drug discovery workflows with BindingDB and KNIME.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav087

By:

Nicola, George;
Berthold, Michael R.;
Hedrick, Michael P.;
Gilson, Michael K.

Publication type:

Article

LncReg: a reference resource for lncRNA-associated regulatory networks.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav083

By:

Zhong Zhou;
Yi Shen;
Khan, Muhammad Riaz;
Ao Li

Publication type:

Article

Co-LncRNA: investigating the lncRNA combinatorial effects in GO annotations and KEGG pathways based on human RNA-Seq data.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav082

By:

Zheng Zhao;
Jing Bai;
Aiwei Wu;
Yuan Wang;
Jinwen Zhang, \;
Zishan Wang;
Yongsheng Li;
Juan Xu;
Xia Li

Publication type:

Article

DENdb: database of integrated human enhancers.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav085

By:

Ashoor, Haitham;
Kleftogiannis, Dimitrios;
Radovanovic, Aleksandar;
Bajic, Vladimir B.

Publication type:

Article

Carbohydrate Structure Database: tools for statistical analysis of bacterial, plant and fungal glycomes.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav073

By:

Egorova, K. S.;
Kondakova, A. N.;
Toukach, Ph. V.

Publication type:

Article

FlyVar: a database for genetic variation in Drosophila melanogaster.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav079

By:

Fei Wang;
Lichun Jiang;
Yong Chen;
Haelterman, Nele A.;
Bellen, Hugo J.;
Rui Chen

Publication type:

Article

CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav078

By:

Doddamani, Dadakhalandar;
Khan, Aamir W.;
Katta, Mohan A. V. S. K.;
Agarwal, Gaurav;
Thudi, Mahendar;
Ruperao, Pradeep;
Edwards, David;
Varshney, Rajeev K.

Publication type:

Article

MicRhoDE: a curated database for the analysis of microbial rhodopsin diversity and evolution.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav080

By:

Boeuf, Dominique;
Audic, Stéphane;
Brillet-Guéguen, Loraine;
Caron, Christophe;
Jeanthon, Christian

Publication type:

Article

Phytochemica: a platform to explore phytochemicals of medicinal plants.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav075

By:

Pathania, Shivalika;
Ramakrishnan, Sai Mukund;
Bagler, Ganesh

Publication type:

Article

MetazSecKB: the human and animal secretome and subcellular proteome knowledgebase.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav077

By:

Meinken, John;
Walker, Gary;
Cooper, Chester R.;
Xiang Jia Min

Publication type:

Article

MESSI: metabolic engineering target selection and best strain identification tool.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav076

By:

Kang Kang;
Jun Li;
Boon Leong Lim;
Panagiotou, Gianni

Publication type:

Article

LocSigDB: a database of protein localization signals.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav003

By:

Negi, Simarjeet;
Pandey, Sanjit;
Srinivasan, Satish M.;
Mohammed, Akram;
Guda, Chittibabu

Publication type:

Article

Automatic concept recognition using the Human Phenotype Ontology reference and test suite corpora.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav005

By:

Groza, Tudor;
Köhler, Sebastian;
Doelken, Sandra;
Collier, Nigel;
Oellrich, Anika;
Smedley, Damian;
Couto, Francisco M.;
Baynam, Gareth;
Zankl, Andreas;
Robinson, Peter N.

Publication type:

Article

GraP: platform for functional genomics analysis of Gossypium raimondii.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav047

By:

Liwei Zhang;
Jinyan Guo;
Qi You;
Xin Yi;
Yi Ling;
Wenying Xu;
Jinping Hua;
Zhen Su

Publication type:

Article

NeuroPep: a comprehensive resource of neuropeptides.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav038

By:

Yan Wang;
Mingxia Wang;
Sanwen Yin;
Jang, Richard;
Jian Wang;
Zhidong Xue;
Tao Xu

Publication type:

Article

Drug-Path: a database for drug-induced pathways.

Published in:

2015

By:

Hui Zeng;
Chengxiang Qiu;
Qinghua Cui

Publication type:

Product Review

PTGBase: an integrated database to study tandem duplicated genes in plants.

Published in:

2015

By:

Jingyin Yu;
Tao Ke;
Tehrim, Sadia;
Fengming Sun;
Boshou Liao;
Wei Hua

Publication type:

Product Review

CyanOmics: an integrated database of omics for the model cyanobacterium Synechococcus sp. PCC 7002.

Published in:

2015

By:

Yaohua Yang;
Jie Feng;
Tao Li;
Feng Ge;
Jindong Zhao

Publication type:

Product Review

Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis.

Published in:

Database: The Journal of Biological Databases & Curation, 2015, v. 2015, p. 1, doi. 10.1093/database/bav032

By:

Tsung-Jung Wu;
Schriml, Lynn M.;
Qing-Rong Chen;
Colbert, Maureen;
Crichton, Daniel J.;
Finney, Richard;
Ying Hu;
Kibbe, Warren A.;
Kincaid, Heather;
Meerzaman, Daoud;
Mitraka, Elvira;
Yang Pan;
Smith, Krista M.;
Srivastava, Sudhir;
Ward, Sari;
Cheng Yan;
Mazumder, Raja

Publication type:

Article

SCAN database: facilitating integrative analyses of cytosine modification and expression QTL.

Published in:

2015

By:

Wei Zhang;
Gamazon, Eric R.;
Xu Zhang;
Konkashbaev, Anuar;
Cong Liu;
Szilágyi, Keely L.;
Dolan, M. Eileen;
Cox, Nancy J.

Publication type:

Product Review