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Volume 2024
2024
(In Progress)
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EISSN 1758-0463

Volume 2024, 2024

Original Articles

piOxi database: a web resource of germline and somatic tissue piRNAs identified by chemical oxidation
Kai Wang and others
Database, Volume 2024, 2024, baad096, https://doi.org/10.1093/database/baad096
The African Human Microbiome Portal: a public web portal of curated metagenomic metadata
Anmol Kiran and others
Database, Volume 2024, 2024, baad092, https://doi.org/10.1093/database/baad092
SEPDB: a database of secreted proteins
Ruiqing Wang and others
Database, Volume 2024, 2024, baae007, https://doi.org/10.1093/database/baae007
Filling knowledge gaps in insect conservation by leveraging genetic data from public archives
Serena Baini and Alessio De Biase
Database, Volume 2024, 2024, baae002, https://doi.org/10.1093/database/baae002
An optimized relational database for querying structural patterns in proteins
Renzo Angles and others
Database, Volume 2024, 2024, baad093, https://doi.org/10.1093/database/baad093
An Inflammatory Bowel Diseases Integrated Resources Portal (IBDIRP)
Nie Kai and others
Database, Volume 2024, 2024, baad097, https://doi.org/10.1093/database/baad097
NanoLAS: a comprehensive nanobody database with data integration, consolidation and application
Shuchang Xiong and others
Database, Volume 2024, 2024, baae003, https://doi.org/10.1093/database/baae003
AHP DB: a reference database of proteins in the human aqueous humor
Tae Jin Lee and others
Database, Volume 2024, 2024, baae001, https://doi.org/10.1093/database/baae001
DAPredict: a database for drug action phenotype prediction
Qingkang Meng and others
Database, Volume 2024, 2024, baad095, https://doi.org/10.1093/database/baad095
FGCD: a database of fungal gene clusters related to secondary metabolism
Fuyuan Zhang and others
Database, Volume 2024, 2024, baae011, https://doi.org/10.1093/database/baae011
ThermoPCD: a database of molecular dynamics trajectories of antibody–antigen complexes at physiologic and fever-range temperatures
Puneet K Singh and Razvan C Stan
Database, Volume 2024, 2024, baae015, https://doi.org/10.1093/database/baae015
Visualization and exploration of linked data using virtual reality
Alexander J Kellmann and others
Database, Volume 2024, 2024, baae008, https://doi.org/10.1093/database/baae008
A data browsing application for accessing gene and module-level blood transcriptome profiles of healthy pregnant women from high- and low-resource settings
Darawan Rinchai and others
Database, Volume 2024, 2024, baae021, https://doi.org/10.1093/database/baae021
CoMentG: comprehensive retrieval of generic relationships between biomedical concepts from the scientific literature
Jorge Novoa and others
Database, Volume 2024, 2024, baae025, https://doi.org/10.1093/database/baae025
Towards building a trustworthy pipeline integrating Neuroscience Gateway and Open Science Chain
S Sivagnanam and others
Database, Volume 2024, 2024, baae023, https://doi.org/10.1093/database/baae023
LettuceDB: an integrated multi-omics database for cultivated lettuce
Wenhui Zhou and others
Database, Volume 2024, 2024, baae018, https://doi.org/10.1093/database/baae018
ProNet DB: a proteome-wise database for protein surface property representations and RNA-binding profiles
Junkang Wei and others
Database, Volume 2024, 2024, baae012, https://doi.org/10.1093/database/baae012
FoPGDB: a pangenome database of Fusarium oxysporum, a cross-kingdom fungal pathogen
Tan Meng and others
Database, Volume 2024, 2024, baae017, https://doi.org/10.1093/database/baae017
BioKC: a collaborative platform for curation and annotation of molecular interactions
Carlos Vega and others
Database, Volume 2024, 2024, baae013, https://doi.org/10.1093/database/baae013
ESKtides: a comprehensive database and mining method for ESKAPE phage-derived antimicrobial peptides
Hongfang Wu and others
Database, Volume 2024, 2024, baae022, https://doi.org/10.1093/database/baae022
Best practices for the manual curation of intrinsically disordered proteins in DisProt
Federica Quaglia and others
Database, Volume 2024, 2024, baae009, https://doi.org/10.1093/database/baae009
AagingBase: a comprehensive database of anti-aging peptides
Kunjulakshmi R and others
Database, Volume 2024, 2024, baae016, https://doi.org/10.1093/database/baae016
SingleQ: a comprehensive database of single-cell expression quantitative trait loci (sc-eQTLs) cross human tissues
Zhiwei Zhou and others
Database, Volume 2024, 2024, baae010, https://doi.org/10.1093/database/baae010
An interactive web application for exploring systemic lupus erythematosus blood transcriptomic diversity
Eléonore Bettacchioli and others
Database, Volume 2024, 2024, baae045, https://doi.org/10.1093/database/baae045
DUVEL: an active-learning annotated biomedical corpus for the recognition of oligogenic combinations
Charlotte Nachtegael and others
Database, Volume 2024, 2024, baae039, https://doi.org/10.1093/database/baae039
MechanoBase: a comprehensive database for the mechanics of tissues and cells
Yanhong Xiong and others
Database, Volume 2024, 2024, baae040, https://doi.org/10.1093/database/baae040
PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the Worldwide Protein Data Bank
Preeti Choudhary and others
Database, Volume 2024, 2024, baae041, https://doi.org/10.1093/database/baae041
MSGD: a manually curated database of genomic, transcriptomic, proteomic and drug information for multiple sclerosis
Tao Wu and others
Database, Volume 2024, 2024, baae037, https://doi.org/10.1093/database/baae037
PMBC: a manually curated database for prognostic markers of breast cancer
Jiabei Liu and others
Database, Volume 2024, 2024, baae033, https://doi.org/10.1093/database/baae033
Pathway-based, reaction-specific annotation of disease variants for elucidation of molecular phenotypes
Marija Orlic-Milacic and others
Database, Volume 2024, 2024, baae031, https://doi.org/10.1093/database/baae031
cancercelllines.org—a novel resource for genomic variants in cancer cell lines
Rahel Paloots and Michael Baudis
Database, Volume 2024, 2024, baae030, https://doi.org/10.1093/database/baae030
MechanoProDB: a web-based database for exploring the mechanical properties of proteins
Ismahene Mesbah and others
Database, Volume 2024, 2024, baae047, https://doi.org/10.1093/database/baae047
DRGKB: a knowledgebase of worldwide diagnosis-related groups’ practices for comparison, evaluation and knowledge-guided application
Shumin Ren and others
Database, Volume 2024, 2024, baae046, https://doi.org/10.1093/database/baae046
The Immunopeptidomics Ontology (ImPO)
Daniel Faria and others
Database, Volume 2024, 2024, baae014, https://doi.org/10.1093/database/baae014
EUKARYOME: the rRNA gene reference database for identification of all eukaryotes
Leho Tedersoo and others
Database, Volume 2024, 2024, baae043, https://doi.org/10.1093/database/baae043
ISTransbase: an online database for inhibitor and substrate of drug transporters
Jinfu Peng and others
Database, Volume 2024, 2024, baae053, https://doi.org/10.1093/database/baae053
MyxoPortal: a database of myxobacterial genomic features
Rayapadi G Swetha and others
Database, Volume 2024, 2024, baae056, https://doi.org/10.1093/database/baae056
SpadaHC: a database to improve the classification of variants in hereditary cancer genes in the Spanish population
José M Moreno-Cabrera and others
Database, Volume 2024, 2024, baae055, https://doi.org/10.1093/database/baae055
DrugRepoBank: a comprehensive database and discovery platform for accelerating drug repositioning
Yixian Huang and others
Database, Volume 2024, 2024, baae051, https://doi.org/10.1093/database/baae051
Towards discovery: an end-to-end system for uncovering novel biomedical relations
Tiago Almeida and others
Database, Volume 2024, 2024, baae057, https://doi.org/10.1093/database/baae057
HOFE: an interactive forensic entomological database
Mandie Liu and others
Database, Volume 2024, 2024, baae058, https://doi.org/10.1093/database/baae058
MIAMI-AD (Methylation in Aging and Methylation in AD): an integrative knowledgebase that facilitates explorations of DNA methylation across sex, aging, and Alzheimer’s disease
David Lukacsovich and others
Database, Volume 2024, 2024, baae061, https://doi.org/10.1093/database/baae061
PPCRKB: a risk factor knowledge base of postoperative pulmonary complications
Jianchao Duan and others
Database, Volume 2024, 2024, baae054, https://doi.org/10.1093/database/baae054
Data set of fraction unbound values in the in vitro incubations for metabolic studies for better prediction of human clearance
Laura Krumpholz and others
Database, Volume 2024, 2024, baae063, https://doi.org/10.1093/database/baae063
Transverse aortic constriction multi-omics analysis uncovers pathophysiological cardiac molecular mechanisms
Enio Gjerga and others
Database, Volume 2024, 2024, baae060, https://doi.org/10.1093/database/baae060
Improving biomedical entity linking for complex entity mentions with LLM-based text simplification
Florian Borchert and others
Database, Volume 2024, 2024, baae067, https://doi.org/10.1093/database/baae067

Database tool

ARAapp: filling gaps in the ecological knowledge of spiders using an automated and dynamic approach to analyze systematically collected community data
Alexander Bach and others
Database, Volume 2024, 2024, baae004, https://doi.org/10.1093/database/baae004
STRIDE-DB: a comprehensive database for exploration of instability and phenotypic relevance of short tandem repeats in the human genome
Bharathram Uppili and Mohammed Faruq
Database, Volume 2024, 2024, baae020, https://doi.org/10.1093/database/baae020
IBDTransDB: a manually curated transcriptomic database for inflammatory bowel disease
Victor Avram and others
Database, Volume 2024, 2024, baae026, https://doi.org/10.1093/database/baae026
nhanesA: achieving transparency and reproducibility in NHANES research
Laha Ale and others
Database, Volume 2024, 2024, baae028, https://doi.org/10.1093/database/baae028
CancerMHL: the database of integrating key DNA methylation, histone modifications and lncRNAs in cancer
Pengyu Du and others
Database, Volume 2024, 2024, baae029, https://doi.org/10.1093/database/baae029
A terpenoids database with the chemical content as a novel agronomic trait
Wenqian Li and others
Database, Volume 2024, 2024, baae027, https://doi.org/10.1093/database/baae027
Collecting and managing in situ banana genetic resources information (Musa spp.) using online resources and citizen science
Christophe Jenny and others
Database, Volume 2024, 2024, baae036, https://doi.org/10.1093/database/baae036
CoSFISH: a comprehensive reference database of COI and 18S rRNA barcodes for fish
Yuanyuan Wang and others
Database, Volume 2024, 2024, baae038, https://doi.org/10.1093/database/baae038
CardioHotspots: a database of mutational hotspots for cardiac disorders
Alberto García S and others
Database, Volume 2024, 2024, baae034, https://doi.org/10.1093/database/baae034
DIRMC: a database of immunotherapy-related molecular characteristics
Yue Liu and others
Database, Volume 2024, 2024, baae032, https://doi.org/10.1093/database/baae032
IPAD-DB: a manually curated database for experimentally verified inhibitors of proteins associated with Alzheimer’s disease
Chong Peng and others
Database, Volume 2024, 2024, baae048, https://doi.org/10.1093/database/baae048
DMLS: an automated pipeline to extract the Drosophila modular transcription regulators and targets from massive literature articles
Tzu-Hsien Yang and others
Database, Volume 2024, 2024
MDDOmics: multi-omics resource of major depressive disorder
Yichao Zhao and others
Database, Volume 2024, 2024, baae042, https://doi.org/10.1093/database/baae042
ImmRNA: a database of RNAs associated with tumor immunity
Fangfang Shen and others
Database, Volume 2024, 2024, baae052, https://doi.org/10.1093/database/baae052
PANGEN: an online platform for the comparison and creation of diagnostic gene panels
Ofer Isakov and others
Database, Volume 2024, 2024, baae065, https://doi.org/10.1093/database/baae065
Aerial Wildlife Image Repository for animal monitoring with drones in the age of artificial intelligence
Sathishkumar Samiappan and others
Database, Volume 2024, 2024, baae070, https://doi.org/10.1093/database/baae070

Database update

FishTEDB 2.0: an update fish transposable element (TE) database with new functions to facilitate TE research
Feng Shao and others
Database, Volume 2024, 2024, baae044, https://doi.org/10.1093/database/baae044
CO-19 PDB 2.0: A Comprehensive COVID-19 Database with Global Auto-Alerts, Statistical Analysis, and Cancer Correlations
Shahid Ullah and others
Database, Volume 2024, 2024, baae072, https://doi.org/10.1093/database/baae072

Review

Analysis and review of techniques and tools based on machine learning and deep learning for prediction of lysine malonylation sites in protein sequences
Shahin Ramazi and others
Database, Volume 2024, 2024, baad094, https://doi.org/10.1093/database/baad094

Correction

Correction to: The importance of graph databases and graph learning for clinical applications
Database, Volume 2024, 2024, baae006, https://doi.org/10.1093/database/baae006
The importance of graph databases and graph learning for clinical applications
Daniel Walke and others
Database, Volume 2024, 2024, baad045, https://doi.org/10.1093/database/baad045
Correction to: LeishMANIAdb: a comparative resource for Leishmania proteins
Database, Volume 2024, 2024, baae005, https://doi.org/10.1093/database/baae005
Correction to: Data sharing and ontology use among agricultural genetics, genomics, and breeding databases and resources of the Agbiodata Consortium
Database, Volume 2024, 2024, baae019, https://doi.org/10.1093/database/baae019
Correction to: ESKtides: a comprehensive database and mining method for ESKAPE phage-derived antimicrobial peptides
Database, Volume 2024, 2024, baae035, https://doi.org/10.1093/database/baae035
Correction to: SEPDB: a database of secreted proteins
Database, Volume 2024, 2024, baae024, https://doi.org/10.1093/database/baae024
Correction to: A Terpenoids Database with the Chemical Content as A Novel Agronomic Trait
Database, Volume 2024, 2024, baae050, https://doi.org/10.1093/database/baae050
Correction to: An interactive web application for exploring systemic lupus erythematosus blood transcriptomic diversity
Database, Volume 2024, 2024, baae059, https://doi.org/10.1093/database/baae059
All issues
  • Online ISSN 1758-0463
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