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Volume 2023, 2023
CiliaMiner: an integrated database for ciliopathy genes and ciliopathies
Merve Gül Turan and others
Database, Volume 2023, 2023, baad047, https://doi.org/10.1093/database/baad047
TRGdb: a universal resource for the exploration of taxonomically restricted genes in bacteria
Andrzej Zielezinski and others
Database, Volume 2023, 2023, baad058, https://doi.org/10.1093/database/baad058
Tissue-specific transcriptomes reveal potential mechanisms of microbiome heterogeneity in an ancient fish
Matt J Thorstensen and others
Database, Volume 2023, 2023, baad055, https://doi.org/10.1093/database/baad055
PolyQ Database—an integrated database on polyglutamine diseases
Bernardo Estevam and others
Database, Volume 2023, 2023, baad060, https://doi.org/10.1093/database/baad060
Original Articles
Developing a disease-specific annotation protocol for VHL gene curation using Hypothes.is
Dena Salehipour and others
Database, Volume 2023, 2023, baac109, https://doi.org/10.1093/database/baac109
ENCD: a manually curated database of experimentally supported endocrine system disease and lncRNA associations
Ming Hao and others
Database, Volume 2023, 2023, baac113, https://doi.org/10.1093/database/baac113
Automatic Extraction of Medication Mentions from Tweets—Overview of the BioCreative VII Shared Task 3 Competition
Davy Weissenbacher and others
Database, Volume 2023, 2023, baac108, https://doi.org/10.1093/database/baac108
SalivaDB—a comprehensive database for salivary biomarkers in humans
Akanksha Arora and others
Database, Volume 2023, 2023, baad002, https://doi.org/10.1093/database/baad002
Coronavirus Immunotherapeutic Consortium Database
Jarjapu Mahita and others
Database, Volume 2023, 2023, baac112, https://doi.org/10.1093/database/baac112
Standardized naming of microbiome samples in Genomes OnLine Database
Supratim Mukherjee and others
Database, Volume 2023, 2023, baad001, https://doi.org/10.1093/database/baad001
FungiProteomeDB: a database for the molecular weight and isoelectric points of the fungal proteomes
Muhammad Rashid and others
Database, Volume 2023, 2023, baad004, https://doi.org/10.1093/database/baad004
Chemical identification and indexing in full-text articles: an overview of the NLM-Chem track at BioCreative VII
Robert Leaman and others
Database, Volume 2023, 2023, baad005, https://doi.org/10.1093/database/baad005
Assessing resource use: a case study with the Human Disease Ontology
J. Allen Baron and Lynn M Schriml
Database, Volume 2023, 2023, baad007, https://doi.org/10.1093/database/baad007
AIMedGraph: a comprehensive multi-relational knowledge graph for precision medicine
Xueping Quan and others
Database, Volume 2023, 2023, baad006, https://doi.org/10.1093/database/baad006
lncHUB2: aggregated and inferred knowledge about human and mouse lncRNAs
Giacomo B Marino and others
Database, Volume 2023, 2023, baad009, https://doi.org/10.1093/database/baad009
dbAQP-SNP: a database of missense single-nucleotide polymorphisms in human aquaporins
Rachana Dande and Ramasubbu Sankararamakrishnan
Database, Volume 2023, 2023, baad012, https://doi.org/10.1093/database/baad012
AFTM: a database of transmembrane regions in the human proteome predicted by AlphaFold
Jimin Pei and Qian Cong
Database, Volume 2023, 2023, baad008, https://doi.org/10.1093/database/baad008
A review of the International Seabed Authority database DeepData from a biological perspective: challenges and opportunities in the UN Ocean Decade
M Rabone and others
Database, Volume 2023, 2023, baad013, https://doi.org/10.1093/database/baad013
NbThermo: a new thermostability database for nanobodies
Mario S Valdés-Tresanco and others
Database, Volume 2023, 2023, baad021, https://doi.org/10.1093/database/baad021
CARD*Shark: automated prioritization of literature curation for the Comprehensive Antibiotic Resistance Database
Arman Edalatmand and Andrew G McArthur
Database, Volume 2023, 2023, baad023, https://doi.org/10.1093/database/baad023
A combinatorial approach implementing new database structures to facilitate practical data curation management of QTL, association, correlation and heritability data on trait variants
Zhi-Liang Hu and others
Database, Volume 2023, 2023, baad024, https://doi.org/10.1093/database/baad024
MBS: a genome browser annotation track for high-confident microRNA binding sites in whole human transcriptome
Walter Arancio and others
Database, Volume 2023, 2023, baad015, https://doi.org/10.1093/database/baad015
OncoCardioDB: a public and curated database of molecular information in onco-cardiology/cardio-oncology
Angela L Riffo-Campos and others
Database, Volume 2023, 2023, baad029, https://doi.org/10.1093/database/baad029
TRSRD: a database for research on risky substances in tea using natural language processing and knowledge graph-based techniques
Yongmei Wang and others
Database, Volume 2023, 2023, baad031, https://doi.org/10.1093/database/baad031
CaviDB: a database of cavities and their features in the structural and conformational space of proteins
Ana Julia Velez Rueda and others
Database, Volume 2023, 2023, baad010, https://doi.org/10.1093/database/baad010
PYK-SubstitutionOME: an integrated database containing allosteric coupling, ligand affinity and mutational, structural, pathological, bioinformatic and computational information about pyruvate kinase isozymes
Liskin Swint-Kruse and others
Database, Volume 2023, 2023, baad030, https://doi.org/10.1093/database/baad030
SmartWoodID—an image collection of large end-grain surfaces to support wood identification systems
Ruben De Blaere and others
Database, Volume 2023, 2023, baad034, https://doi.org/10.1093/database/baad034
IHM-DB: a curated collection of metagenomics data from the Indian Himalayan Region, and automated pipeline for 16S rRNA amplicon-based analysis (AutoQii2)
Abhishek Khatri and others
Database, Volume 2023, 2023, baad039, https://doi.org/10.1093/database/baad039
PLBD: protein–ligand binding database of thermodynamic and kinetic intrinsic parameters
Darius Lingė and others
Database, Volume 2023, 2023, baad040, https://doi.org/10.1093/database/baad040
Neodb: a comprehensive neoantigen database and discovery platform for cancer immunotherapy
Tao Wu and others
Database, Volume 2023, 2023, baad041, https://doi.org/10.1093/database/baad041
GeniePool: genomic database with corresponding annotated samples based on a cloud data lake architecture
Noam Hadar and others
Database, Volume 2023, 2023, baad043, https://doi.org/10.1093/database/baad043
RNA-Chrom: a manually curated analytical database of RNA–chromatin interactome
G K Ryabykh and others
Database, Volume 2023, 2023, baad025, https://doi.org/10.1093/database/baad025
PETCH-DB: a Portal for Exploring Tissue-specific and Complex disease-associated 5-Hydroxymethylcytosines
Qinyun Cai and others
Database, Volume 2023, 2023, baad042, https://doi.org/10.1093/database/baad042
VariantHunter: a method and tool for fast detection of emerging SARS-CoV-2 variants
Pietro Pinoli and others
Database, Volume 2023, 2023, baad044, https://doi.org/10.1093/database/baad044
PearMODB: a multiomics database for pear (Pyrus) genomics, genetics and breeding study
Jian Hu and others
Database, Volume 2023, 2023, baad050, https://doi.org/10.1093/database/baad050
CropGF: a comprehensive visual platform for crop gene family mining and analysis
Jingtian Xu and others
Database, Volume 2023, 2023, baad051, https://doi.org/10.1093/database/baad051
APDB: a database on air pollutant characterization and similarity prediction
Eva Viesi and others
Database, Volume 2023, 2023, baad046, https://doi.org/10.1093/database/baad046
scBrainMap: a landscape for cell types and associated genetic markers in the brain
Yuhao Chi and others
Database, Volume 2023, 2023, baad035, https://doi.org/10.1093/database/baad035
BLAB2CancerKD: a knowledge graph database focusing on the association between lactic acid bacteria and cancer, but beyond
Yi Jing and others
Database, Volume 2023, 2023, baad036, https://doi.org/10.1093/database/baad036
PurificationDB: database of purification conditions for proteins
Olivia Garland and others
Database, Volume 2023, 2023, baad016, https://doi.org/10.1093/database/baad016
Assessing the use of supplementary materials to improve genomic variant discovery
Emilie Pasche and others
Database, Volume 2023, 2023, baad017, https://doi.org/10.1093/database/baad017
PDC: a highly compact file format to store protein 3D coordinates
Chengxin Zhang and Anna Marie Pyle
Database, Volume 2023, 2023, baad018, https://doi.org/10.1093/database/baad018
Semi-automatic translation of medicine usage data (in Dutch, free-text) from Lifelines COVID-19 questionnaires to ATC codes
Alexander J Kellmann and others
Database, Volume 2023, 2023, baad019, https://doi.org/10.1093/database/baad019
Developing TeroENZ and TeroMAP modules for the terpenome research platform TeroKit
Nianhang Chen and others
Database, Volume 2023, 2023, baad020, https://doi.org/10.1093/database/baad020
CenhANCER: a comprehensive cancer enhancer database for primary tissues and cell lines
Zhi-Hui Luo and others
Database, Volume 2023, 2023, baad022, https://doi.org/10.1093/database/baad022
The landscape of health disparities in the UK Biobank
Shashwat Deepali Nagar and others
Database, Volume 2023, 2023, baad026, https://doi.org/10.1093/database/baad026
AI4FoodDB: a database for personalized e-Health nutrition and lifestyle through wearable devices and artificial intelligence
Sergio Romero-Tapiador and others
Database, Volume 2023, 2023, baad049, https://doi.org/10.1093/database/baad049
Biomedical relation extraction with knowledge base–refined weak supervision
Wonjin Yoon and others
Database, Volume 2023, 2023, baad054, https://doi.org/10.1093/database/baad054
The MetaGens algorithm for metagenomic database lossy compression and subject alignment
Gustavo Henrique Cervi and others
Database, Volume 2023, 2023, baad053, https://doi.org/10.1093/database/baad053
CBPDdb: a curated database of compounds derived from Coumarin–Benzothiazole–Pyrazole
Shailima Rampogu and others
Database, Volume 2023, 2023, baad062, https://doi.org/10.1093/database/baad062
Building a large gene expression-cancer knowledge base with limited human annotations
Stefano Marchesin and others
Database, Volume 2023, 2023, baad061, https://doi.org/10.1093/database/baad061
Review
New approaches in developing medicinal herbs databases
Zahra Fathifar and others
Database, Volume 2023, 2023, baac110, https://doi.org/10.1093/database/baac110
Review of databases for experimentally validated human microRNA–mRNA interactions
Dorian Kariuki and others
Database, Volume 2023, 2023, baad014, https://doi.org/10.1093/database/baad014
The importance of graph databases and graph learning for clinical applications
Daniel Walke and others
Database, Volume 2023, 2023, baad045, https://doi.org/10.1093/database/baad045
Technical report
WASP: the World Archives of Species Perception
Tuan Nguyen and others
Database, Volume 2023, 2023, baad003, https://doi.org/10.1093/database/baad003
Database tool
Improved insights into the SABIO-RK database via visualization
Dorotea Dudaš and others
Database, Volume 2023, 2023, baad011, https://doi.org/10.1093/database/baad011
SyntenyViewer: a comparative genomics-driven translational research tool
Raphael Flores and others
Database, Volume 2023, 2023, baad027, https://doi.org/10.1093/database/baad027
MantaID: a machine learning–based tool to automate the identification of biological database IDs
Zhengpeng Zeng and others
Database, Volume 2023, 2023, baad028, https://doi.org/10.1093/database/baad028
Integrated ACMG-approved genes and ICD codes for the translational research and precision medicine
Raghunandan Wable and others
Database, Volume 2023, 2023, baad033, https://doi.org/10.1093/database/baad033
ChagasDB: 80 years of publicly available data on the molecular host response to Trypanosoma cruzi infection in a single database
Pauline Brochet and others
Database, Volume 2023, 2023, baad037, https://doi.org/10.1093/database/baad037
CIGAF—a database and interactive platform for insect-associated trichomycete fungi
Shalini Chaudhary and others
Database, Volume 2023, 2023, baad038, https://doi.org/10.1093/database/baad038
MineProt: a stand-alone server for structural proteome curation
Yunchi Zhu and others
Database, Volume 2023, 2023, Page 0, https://doi.org/10.1093/database/baad059
CCIDB: a manually curated cell–cell interaction database with cell context information
Jin Young Noh and others
Database, Volume 2023, 2023, baad057, https://doi.org/10.1093/database/baad057
AVPCD: a plant-derived medicine database of antiviral phytochemicals for cancer, Covid-19, malaria and HIV
Shahid Ullah and others
Database, Volume 2023, 2023, baad056, https://doi.org/10.1093/database/baad056
Perspective/Opinion
Unified and pluralistic ideals for data sharing and reuse in biodiversity
Beckett Sterner and others
Database, Volume 2023, 2023, baad048, https://doi.org/10.1093/database/baad048
Correction
Correction to: Standardized naming of microbiome samples in Genomes OnLine Database
Database, Volume 2023, 2023, baad032, https://doi.org/10.1093/database/baad032
Correction to: RNA-Chrom: a manually curated analytical database of RNA–chromatin interactome
Database, Volume 2023, 2023, baad052, https://doi.org/10.1093/database/baad052
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