Works in Database: The Journal of Biological Databases & Curation, 2023, Vol 2023

Results: 25

Correction to: Standardized naming of microbiome samples in Genomes OnLine Database.

Published in:: 2023
Publication type:: Correction Notice

A combinatorial approach implementing new database structures to facilitate practical data curation management of QTL, association, correlation and heritability data on trait variants.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad024

By:

Hu, Zhi-Liang;
Park, Carissa A;
Reecy, James M

Publication type:

Article

CARD*Shark: automated prioritization of literature curation for the Comprehensive Antibiotic Resistance Database.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad023

By:

Edalatmand, Arman;
McArthur, Andrew G

Publication type:

Article

NbThermo: a new thermostability database for nanobodies.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad021

By:

Valdés-Tresanco, Mario S;
Valdés-Tresanco, Mario E;
Molina-Abad, Esteban;
Moreno, Ernesto

Publication type:

Article

PDC: a highly compact file format to store protein 3D coordinates.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad018

By:

Zhang, Chengxin;
Pyle, Anna Marie

Publication type:

Article

Assessing the use of supplementary materials to improve genomic variant discovery.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad017

By:

Pasche, Emilie;
Mottaz, Anaïs;
Gobeill, Julien;
Michel, Pierre-André;
Caucheteur, Déborah;
Naderi, Nona;
Ruch, Patrick

Publication type:

Article

PurificationDB: database of purification conditions for proteins.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad016

By:

Garland, Olivia;
Radaeva, Mariia;
Pandey, Mohit;
Cherkasov, Artem;
Lallous, Nada

Publication type:

Article

MBS: a genome browser annotation track for high-confident microRNA binding sites in whole human transcriptome.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad015

By:

Arancio, Walter;
Sciaraffa, Nicolina;
Coronnello, Claudia

Publication type:

Article

A review of the International Seabed Authority database DeepData from a biological perspective: challenges and opportunities in the UN Ocean Decade.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad013

By:

Rabone, M;
Horton, T;
Jones, D O B;
Simon-Lledó, E;
Glover, A G

Publication type:

Article

dbAQP-SNP: a database of missense single-nucleotide polymorphisms in human aquaporins.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad012

By:

Dande, Rachana;
Sankararamakrishnan, Ramasubbu

Publication type:

Article

Improved insights into the SABIO-RK database via visualization.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad011

By:

Dudaš, Dorotea;
Wittig, Ulrike;
Rey, Maja;
Weidemann, Andreas;
Müller, Wolfgang

Publication type:

Article

lncHUB2: aggregated and inferred knowledge about human and mouse lncRNAs.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad009

By:

Marino, Giacomo B;
Wojciechowicz, Megan L;
Clarke, Daniel J B;
Kuleshov, Maxim V;
Xie, Zhuorui;
Jeon, Minji;
Lachmann, Alexander;
Ma'ayan, Avi

Publication type:

Article

AFTM: a database of transmembrane regions in the human proteome predicted by AlphaFold.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad008

By:

Pei, Jimin;
Cong, Qian

Publication type:

Article

Assessing resource use: a case study with the Human Disease Ontology.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad007

By:

Baron, J. Allen;
Schriml, Lynn M

Publication type:

Article

AIMedGraph: a comprehensive multi-relational knowledge graph for precision medicine.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad006

By:

Quan, Xueping;
Cai, Weijing;
Xi, Chenghang;
Wang, Chunxiao;
Yan, Linghua

Publication type:

Article

Chemical identification and indexing in full-text articles: an overview of the NLM-Chem track at BioCreative VII.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad005

By:

Leaman, Robert;
Islamaj, Rezarta;
Adams, Virginia;
Alliheedi, Mohammed A;
Almeida, João Rafael;
Antunes, Rui;
Bevan, Robert;
Chang, Yung-Chun;
Erdengasileng, Arslan;
Hodgskiss, Matthew;
Ida, Ryuki;
Kim, Hyunjae;
Li, Keqiao;
Mercer, Robert E;
Mertová, Lukrécia;
Mobasher, Ghadeer;
Shin, Hoo-Chang;
Sung, Mujeen;
Tsujimura, Tomoki;
Yeh, Wen-Chao

Publication type:

Article

FungiProteomeDB: a database for the molecular weight and isoelectric points of the fungal proteomes.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad004

By:

Rashid, Muhammad;
Omar, Muhammad;
Mohanta, Tapan Kumar

Publication type:

Article

WASP: the World Archives of Species Perception.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad003

By:

Nguyen, Tuan;
Malina, Robert;
Mokas, Ilias;
Papakonstantinou, Antonis;
Polyzos, Orestes;
Vanhove, Maarten P M

Publication type:

Article

SalivaDB—a comprehensive database for salivary biomarkers in humans.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad002

By:

Arora, Akanksha;
Kaur, Dashleen;
Patiyal, Sumeet;
Kaur, Dilraj;
Tomer, Ritu;
Raghava, Gajendra P S

Publication type:

Article

Standardized naming of microbiome samples in Genomes OnLine Database.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baad001

By:

Mukherjee, Supratim;
Ovchinnikova, Galina;
Stamatis, Dimitri;
Li, Cindy Tianqing;
Chen, I-Min A;
Kyrpides, Nikos C;
Reddy, T B K

Publication type:

Article

ENCD: a manually curated database of experimentally supported endocrine system disease and lncRNA associations.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baac113

By:

Hao, Ming;
Qi, Yue;
Xu, Rongji;
Zhao, Kangqi;
Li, Mingqing;
Shan, Yongyan;
Xia, Tian;
Yang, Kun;
Hasi, Wuyang;
Zhang, Cong;
Li, Daowei;
Wang, Yi;
Wang, Peng;
Kuang, Hongyu

Publication type:

Article

Coronavirus Immunotherapeutic Consortium Database.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baac112

By:

Mahita, Jarjapu;
Ha, Brendan;
Gambiez, Anais;
Schendel, Sharon L;
Li, Haoyang;
Hastie, Kathryn M;
Dennison, S Moses;
Li, Kan;
Kuzmina, Natalia;
Periasamy, Sivakumar;
Bukreyev, Alexander;
Munt, Jennifer E;
Osei-Twum, Mary;
Atyeo, Caroline;
Overton, James A;
Vita, Randi;
Guzman-Orozco, Hector;
Mendes, Marcus;
Kojima, Mari;
Halfmann, Peter J

Publication type:

Article

New approaches in developing medicinal herbs databases.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baac110

By:

Fathifar, Zahra;
Kalankesh, Leila R;
Ostadrahimi, Alireza;
Ferdousi, Reza

Publication type:

Article

Developing a disease-specific annotation protocol for VHL gene curation using Hypothes.is.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baac109

By:

Salehipour, Dena;
Farncombe, Kirsten M;
Andric, Veronica;
Ansar, Safa;
Delong, Sean;
Li, Eric;
Macpherson, Samantha;
Ridd, Sarah;
Ritter, Deborah I;
Thaxton, Courtney;
Kim, Raymond H

Publication type:

Article

Automatic Extraction of Medication Mentions from Tweets—Overview of the BioCreative VII Shared Task 3 Competition.

Published in:

Database: The Journal of Biological Databases & Curation, 2023, v. 2023, p. 1, doi. 10.1093/database/baac108

By:

Weissenbacher, Davy;
O'Connor, Karen;
Rawal, Siddharth;
Zhang, Yu;
Tsai, Richard Tzong-Han;
Miller, Timothy;
Xu, Dongfang;
Anderson, Carol;
Liu, Bo;
Han, Qing;
Zhang, Jinfeng;
Kulev, Igor;
Köprü, Berkay;
Rodriguez-Esteban, Raul;
Ozkirimli, Elif;
Ayach, Ammer;
Roller, Roland;
Piccolo, Stephen;
Han, Peijin;
Vydiswaran, V G Vinod

Publication type:

Article