Content-Type: text/html; Oxford Academic
 
 
 
Oxford Academic
 
 
 
 
New issue alert
 
 
 
 
New Impact Factor Announced
 
We are delighted to reveal that the latest Impact Factor for Nucleic Acids Research has risen to 16.971. To celebrate this new Impact Factor, we have curated a collection of highly cited articles from recent years.
 
 
 
 
 
 
Nucleic Acids Research  
Volume 50 Issue D1
 
7 January 2022
 
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EDITORIAL
 
 
 
The 2022 Nucleic Acids Research database issue and the online molecular biology database collection border= 
 
Daniel J Rigden; Xosé M Fernández
 
 
 
MAJOR MULTI-DATABASE RESOURCES
 
 
 
The European Bioinformatics Institute (EMBL-EBI) in 2021 border= 
 
Gaia Cantelli; Alex Bateman; Cath Brooksbank; Anton I Petrov ; Rahuman S Malik-Sheriff ...
 
 
Database resources of the national center for biotechnology information 
 
Eric W Sayers; Evan E Bolton; J Rodney Brister; Kathi Canese ; Jessica Chan ...
 
 
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022 border= 
 
Yongbiao Xue; Yiming Bao; Zhang Zhang ; Wenming Zhao; Jingfa Xiao ...
 
 
 
NUCLEIC ACID SEQUENCE, STRUCTURE AND REGULATION
 
 
 
3²aQTL-atlas: an atlas of 3²UTR alternative polyadenylation quantitative trait loci across human normal tissues border= 
 
Ya Cui; Fanglue Peng; Dan Wang ; Yumei Li; Jason Sheng Li ...
 
 
 
Animal-eRNAdb: a comprehensive animal enhancer RNA database border= 
 
Weiwei Jin; Guanghui Jiang; Yanbo Yang; Jianye Yang ; Wenqian Yang ...
 
 
APPRIS: selecting functionally important isoforms border= 
 
Jose Manuel Rodriguez; Fernando Pozo; Daniel Cerdán-Vélez; Tomás Di Domenico ; Jesús Vázquez ...
 
 
ASMdb: a comprehensive database for allele-specific DNA methylation in diverse organisms border= 
 
Qiangwei Zhou; Pengpeng Guan; Zhixian Zhu ; Sheng Cheng; Cong Zhou ...
 
 
CircleBase: an integrated resource and analysis platform for human eccDNAs border= 
 
Xiaolu Zhao; Leisheng Shi; Shasha Ruan; Wenjian Bi ; Yifan Chen ...
 
 
circMine: a comprehensive database to integrate, analyze and visualize human disease'related circRNA transcriptome border= 
 
Wenliang Zhang; Yang Liu; Zhuochao Min ; Guodong Liang; Jing Mo ...
 
 
 
CircNet 2.0: an updated database for exploring circular RNA regulatory networks in cancers border= 
 
Yigang Chen; Lantian Yao; Yun Tang ; Jhih-Hua Jhong; Jingting Wan ...
 
 
DNA Data Bank of Japan (DDBJ) update report 2021 border= 
 
Toshihisa Okido; Yuichi Kodama; Jun Mashima; Takehide Kosuge ; Takatomo Fujisawa ...
 
 
The European Nucleotide Archive in 2021 border= 
 
Carla Cummins; Alisha Ahamed; Raheela Aslam; Josephine Burgin ; Rajkumar Devraj ...
 
 
EVAtlas: a comprehensive database for ncRNA expression in human extracellular vesicles border= 
 
Chun-Jie Liu; Gui-Yan Xie; Ya-Ru Miao ; Mengxuan Xia; Yi Wang ...
 
 
exoRBase 2.0: an atlas of mRNA, lncRNA and circRNA in extracellular vesicles from human biofluids border= 
 
Hongyan Lai; Yuchen Li; Hena Zhang ; Jia Hu; Jiatao Liao ...
 
 
Expression Atlas update: gene and protein expression in multiple species border= 
 
Pablo Moreno; Silvie Fexova; Nancy George; Jonathan R Manning ; Zhichiao Miao ...
 
 
Factorbook: an updated catalog of transcription factor motifs and candidate regulatory motif sites border= 
 
Henry E Pratt; Gregory R Andrews; Nishigandha Phalke ; Michael J Purcaro; Arjan van der Velde ...
 
 
G4LDB 2.2: a database for discovering and studying G-quadruplex and i-Motif ligands border= 
 
Yu-Huan Wang; Qian-Fan Yang; Xiao Lin ; Die Chen; Zhi-Yin Wang ...
 
 
GenBank 
 
Eric W Sayers ; Mark Cavanaugh; Karen Clark; Kim D Pruitt; Conrad L Schoch ...
 
 
JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles border= 
 
Jaime A Castro-Mondragon; Rafael Riudavets-Puig; Ieva Rauluseviciute ; Roza Berhanu Lemma; Laura Turchi ...
 
 
LIRBase: a comprehensive database of long inverted repeats in eukaryotic genomes border= 
 
Lihua Jia; Yang Li; Fangfang Huang ; Yingru Jiang; Haoran Li ...
 
 
LncACTdb 3.0: an updated database of experimentally supported ceRNA interactions and personalized networks contributing to precision medicine border= 
 
Peng Wang; Qiuyan Guo; Yue Qi ; Yangyang Hao; Yue Gao ...
 
 
LncRNAWiki 2.0: a knowledgebase of human long non-coding RNAs with enhanced curation model and database system border= 
 
Lin Liu; Zhao Li; Chang Liu ; Dong Zou; Qianpeng Li ...
 
 
m5C-Atlas: a comprehensive database for decoding and annotating the 5-methylcytosine (m5C) epitranscriptome border= 
 
Jiongming Ma; Bowen Song; Zhen Wei ; Daiyun Huang; Yuxin Zhang ...
 
 
MirGeneDB 2.1: toward a complete sampling of all major animal phyla border= 
 
Bastian Fromm; Eirik Høye; Diana Domanska; Xiangfu Zhong ; Ernesto Aparicio-Puerta ...
 
 
miRNATissueAtlas2: an update to the human miRNA tissue atlas border= 
 
Andreas Keller; Laura Gröger; Thomas Tschernig; Jeffrey Solomon ; Omar Laham ...
 
 
miRTarBase update 2022: an informative resource for experimentally validated miRNA'target interactions border= 
 
Hsi-Yuan Huang; Yang-Chi-Dung Lin; Shidong Cui ; Yixian Huang; Yun Tang ...
 
 
MODOMICS: a database of RNA modification pathways. 2021 update border= 
 
Pietro Boccaletto; Filip Stefaniak; Angana Ray; Andrea Cappannini ; Sunandan Mukherjee ...
 
 
msRepDB: a comprehensive repetitive sequence database of over 80 000 species border= 
 
Xingyu Liao; Kang Hu; Adil Salhi; You Zou ; Jianxin Wang ...
 
 
Nanobase.org: a repository for DNA and RNA nanostructures border= 
 
Erik Poppleton; Aatmik Mallya; Swarup Dey; Joel Joseph ; Petr Å ulc
 
 
ONQUADRO: a database of experimentally determined quadruplex structures border= 
 
Tomasz Zok; Natalia Kraszewska; Joanna Miskiewicz; Paulina Pielacinska ; Michal Zurkowski ...
 
 
piRNAclusterDB 2.0: update and expansion of the piRNA cluster database border= 
 
David Rosenkranz; Hans Zischler; Daniel Gebert
 
 
piRBase: integrating piRNA annotation in all aspects border= 
 
Jiajia Wang; Yirong Shi; Honghong Zhou; Peng Zhang ; Tingrui Song ...
 
 
PLSDB: advancing a comprehensive database of bacterial plasmids border= 
 
Georges P Schmartz; Anna Hartung; Pascal Hirsch; Fabian Kern ; Tobias Fehlmann ...
 
 
Pol3Base: a resource for decoding the interactome, expression, evolution, epitranscriptome and disease variations of Pol III-transcribed ncRNAs border= 
 
Li Cai; Jiajia Xuan; Qiao Lin ; Junhao Wang; Shurong Liu ...
 
 
POSTAR3: an updated platform for exploring post-transcriptional regulation coordinated by RNA-binding proteins border= 
 
Weihao Zhao; Shang Zhang; Yumin Zhu ; Xiaochen Xi; Pengfei Bao ...
 
 
PRODORIC: state-of-the-art database of prokaryotic gene regulation border= 
 
Christian-Alexander Dudek; Dieter Jahn
 
 
R-loopBase: a knowledgebase for genome-wide R-loop formation and regulation border= 
 
Ruoyao Lin; Xiaoming Zhong; Yongli Zhou; Huichao Geng ; Qingxi Hu ...
 
 
ReMap 2022: a database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments border= 
 
Fayrouz Hammal; Pierre de Langen; Aurélie Bergon ; Fabrice Lopez; Benoit Ballester
 
 
RNAInter v4.0: RNA interactome repository with redefined confidence scoring system and improved accessibility border= 
 
Juanjuan Kang; Qiang Tang; Jun He ; Le Li; Nianling Yang ...
 
 
RNALocate v2.0: an updated resource for RNA subcellular localization with increased coverage and annotation border= 
 
Tianyu Cui; Yiying Dou; Puwen Tan ; Zhen Ni; Tianyuan Liu ...
 
 
RNAPhaSep: a resource of RNAs undergoing phase separation border= 
 
Haibo Zhu; Hao Fu; Tianyu Cui; Lin Ning ; Huaguo Shao ...
 
 
RPS: a comprehensive database of RNAs involved in liquid'liquid phase separation border= 
 
Mengni Liu; Huiqin Li; Xiaotong Luo ; Jieyi Cai; Tianjian Chen ...
 
 
scAPAatlas: an atlas of alternative polyadenylation across cell types in human and mouse border= 
 
Xiaoxiao Yang; Yang Tong; Gerui Liu ; Jiapei Yuan; Yang Yang
 
 
scAPAdb: a comprehensive database of alternative polyadenylation at single-cell resolution border= 
 
Sheng Zhu; Qiwei Lian; Wenbin Ye ; Wei Qin; Zhe Wu ...
 
 
scEnhancer: a single-cell enhancer resource with annotation across hundreds of tissue/cell types in three species border= 
 
Tianshun Gao; Zilong Zheng; Yihang Pan ; Chengming Zhu; Fuxin Wei ...
 
 
scMethBank: a database for single-cell whole genome DNA methylation maps border= 
 
Wenting Zong; Hongen Kang; Zhuang Xiong; Yingke Ma ; Tong Jin ...
 
 
The Sequence Read Archive: a decade more of explosive growth 
 
Kenneth Katz; Oleg Shutov; Richard Lapoint; Michael Kimelman ; J Rodney Brister ...
 
 
TcoFBase: a comprehensive database for decoding the regulatory transcription co-factors in human and mouse border= 
 
Yuexin Zhang; Chao Song; Yimeng Zhang ; Yuezhu Wang; Chenchen Feng ...
 
 
TF-Marker: a comprehensive manually curated database for transcription factors and related markers in specific cell and tissue types in human border= 
 
Mingcong Xu; Xuefeng Bai; Bo Ai ; Guorui Zhang; Chao Song ...
 
 
TransLnc: a comprehensive resource for translatable lncRNAs extends immunopeptidome border= 
 
Dezhong Lv; Zhenghong Chang; Yangyang Cai ; Junyi Li; Liping Wang ...
 
 
tsRFun: a comprehensive platform for decoding human tsRNA expression, functions and prognostic value by high-throughput small RNA-Seq and CLIP-Seq data border= 
 
Jun-Hao Wang; Wen-Xin Chen; Shi-Qiang Mei ; Yue-Dong Yang; Jian-Hua Yang ...
 
 
ViroidDB: a database of viroids and viroid-like circular RNAs 
 
Benjamin D Lee; Uri Neri; Caleb J Oh; Peter Simmonds ; Eugene V Koonin
 
 
 
PROTEIN SEQUENCE AND STRUCTURE, MOTIFS AND DOMAINS
 
 
 
AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models border= 
 
Mihaly Varadi; Stephen Anyango; Mandar Deshpande ; Sreenath Nair; Cindy Natassia ...
 
 
CovPDB: a high-resolution coverage of the covalent protein'ligand interactome border= 
 
Mingjie Gao; Aurélien F A Moumbock; Ammar Qaseem; Qianqing Xu ; Stefan Günther
 
 
CPLM 4.0: an updated database with rich annotations for protein lysine modifications border= 
 
Weizhi Zhang; Xiaodan Tan; Shaofeng Lin ; Yujie Gou; Cheng Han ...
 
 
dbAMP 2.0: updated resource for antimicrobial peptides with an enhanced scanning method for genomic and proteomic data border= 
 
Jhih-Hua Jhong; Lantian Yao; Yuxuan Pang ; Zhongyan Li; Chia-Ru Chung ...
 
 
dbPTM in 2022: an updated database for exploring regulatory networks and functional associations of protein post-translational modifications border= 
 
Zhongyan Li; Shangfu Li; Mengqi Luo ; Jhih-Hua Jhong; Wenshuo Li ...
 
 
DisProt in 2022: improved quality and accessibility of protein intrinsic disorder annotation border= 
 
Federica Quaglia; Bálint Mészáros; Edoardo Salladini ; András Hatos; Rita Pancsa ...
 
 
DRAMP 3.0: an enhanced comprehensive data repository of antimicrobial peptides border= 
 
Guobang Shi; Xinyue Kang; Fanyi Dong; Yanchao Liu ; Ning Zhu ...
 
 
The Eukaryotic Linear Motif resource: 2022 release border= 
 
Manjeet Kumar; Sushama Michael; Jesús Alvarado-Valverde; Bálint Mészáros ; Hugo SámanoSánchez ...
 
 
FuzDB: a new phase in understanding fuzzy interactions border= 
 
Andras Hatos; Alexander Miguel Monzon; Silvio C E Tosatto; Damiano Piovesan ; Monika Fuxreiter
 
 
The G protein database, GproteinDb border= 
 
Gáspár Pándy-Szekeres; Mauricio Esguerra; Alexander S Hauser; Jimmy Caroli ; Christian Munk ...
 
 
The Human Proteoform Atlas: a FAIR community resource for experimentally derived proteoforms border= 
 
Michael A R Hollas; Matthew T Robey; Ryan T Fellers ; Richard D LeDuc; Paul M Thomas ...
 
 
PDBe-KB: collaboratively defining the biological context of structural data border= 
 
Mihaly Varadi; Stephen Anyango; David Armstrong; John Berrisford ; Preeti Choudhary ...
 
 
The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences border= 
 
Yasset Perez-Riverol; Jingwen Bai; Chakradhar Bandla ; David García-Seisdedos; Suresh Hewapathirana ...
 
 
SCOPe: improvements to the structural classification of proteins ' extended database to facilitate variant interpretation and machine learning border= 
 
John-Marc Chandonia; Lindsey Guan; Shiangyi Lin ; Changhua Yu; Naomi K Fox ...
 
 
SYNBIP: synthetic binding proteins for research, diagnosis and therapy border= 
 
Xiaona Wang; Fengcheng Li; Wenqi Qiu; Binbin Xu ; Yanlin Li ...
 
 
 
METABOLIC AND SIGNALLING PATHWAYS, ENZYMES
 
 
 
The carbohydrate-active enzyme database: functions and literature border= 
 
Elodie Drula; Marie-Line Garron; Suzan Dogan; Vincent Lombard ; Bernard Henrissat ...
 
 
Complex Portal 2022: new curation frontiers border= 
 
Birgit H M Meldal; Livia Perfetto; Colin Combe; Tiago Lubiana ; João Vitor Ferreira Cavalcante ...
 
 
ConsensusPathDB 2022: molecular interactions update as a resource for network biology border= 
 
Atanas Kamburov; Ralf Herwig
 
 
DISCO: a database of Deeply Integrated human Single-Cell Omics data border= 
 
Mengwei Li; Xiaomeng Zhang; Kok Siong Ang; Jingjing Ling ; Raman Sethi ...
 
 
eQuilibrator 3.0: a database solution for thermodynamic constant estimation border= 
 
Moritz E Beber; Mattia G Gollub; Dana Mozaffari; Kevin M Shebek ; Avi I Flamholz ...
 
 
GRAND: a database of gene regulatory network models across human conditions border= 
 
Marouen Ben Guebila; Camila M Lopes-Ramos; Deborah Weighill; Abhijeet Rajendra Sonawane ; Rebekka Burkholz ...
 
 
HMDB 5.0: the Human Metabolome Database for 2022 border= 
 
David S Wishart; AnChi Guo; Eponine Oler; Fei Wang ; Afia Anjum ...
 
 
HumanNet v3: an improved database of human gene networks for disease research border= 
 
Chan Yeong Kim; Seungbyn Baek; Junha Cha; Sunmo Yang ; Eiru Kim ...
 
 
IID 2021: towards context-specific protein interaction analyses by increased coverage, enhanced annotation and enrichment analysis border= 
 
Max Kotlyar; Chiara Pastrello; Zuhaib Ahmed ; Justin Chee; Zofia Varyova ...
 
 
The IntAct database: efficient access to fine-grained molecular interaction data border= 
 
Noemi del Toro; Anjali Shrivastava; Eliot Ragueneau ; Birgit Meldal; Colin Combe ...
 
 
Kincore: a web resource for structural classification of protein kinases and their inhibitors border= 
 
Vivek Modi; Roland L Dunbrack, Jr
 
 
NP-MRD: the Natural Products Magnetic Resonance Database border= 
 
David S Wishart; Zinat Sayeeda; Zachary Budinski; AnChi Guo ; Brian L Lee ...
 
 
OlfactionBase: a repository to explore odors, odorants, olfactory receptors and odorant'receptor interactions border= 
 
Anju Sharma; Bishal Kumar Saha; Rajnish Kumar ; Pritish Kumar Varadwaj
 
 
The reactome pathway knowledgebase 2022 border= 
 
Marc Gillespie; Bijay Jassal; Ralf Stephan; Marija Milacic ; Karen Rothfels ...
 
 
Rhea, the reaction knowledgebase in 2022 border= 
 
Parit Bansal; Anne Morgat; Kristian B Axelsen; Venkatesh Muthukrishnan ; Elisabeth Coudert ...
 
 
SignaLink3: a multi-layered resource to uncover tissue-specific signaling networks border= 
 
Luca Csabai; Dávid Fazekas; Tamás Kadlecsik ; Máté Szalay-BekÅ'; Balázs Bohár ...
 
 
TissueNexus: a database of human tissue functional gene networks built with a large compendium of curated RNA-seq data border= 
 
Cui-Xiang Lin; Hong-Dong Li; Chao Deng ; Yuanfang Guan; Jianxin Wang
 
 
UbiBrowser 2.0: a comprehensive resource for proteome-wide known and predicted ubiquitin ligase/deubiquitinase'substrate interactions in eukaryotic species border= 
 
Xun Wang; Yang Li; Mengqi He ; Xiangren Kong; Peng Jiang ...
 
 
 
VIRUSES, BACTERIA, PROTOZOA AND FUNGI
 
 
 
AMDB: a database of animal gut microbial communities with manually curated metadata border= 
 
Junwon Yang; Jonghyun Park; Yeonjae Jung ; Jongsik Chun
 
 
ARTS-DB: a database for antibiotic resistant targets border= 
 
Mehmet Direnç Mungan; Kai Blin; Nadine Ziemert
 
 
BacDive in 2022: the knowledge base for standardized bacterial and archaeal data border= 
 
Lorenz Christian Reimer; Joaquim Sardà Carbasse; Julia Koblitz ; Christian Ebeling; Adam Podstawka ...
 
 
COVID19db: a comprehensive database platform to discover potential drugs and targets of COVID-19 at whole transcriptomic scale border= 
 
Wenliang Zhang; Yan Zhang; Zhuochao Min ; Jing Mo; Zhen Ju ...
 
 
CyanoOmicsDB: an integrated omics database for functional genomic analysis of cyanobacteria border= 
 
Peng Zhou; Li Wang; Hai Liu ; Chunyan Li; Zhimin Li ...
 
 
The Ensembl COVID-19 resource: ongoing integration of public SARS-CoV-2 data border= 
 
Nishadi H De Silva; Jyothish Bhai; Marc Chakiachvili; Bruno Contreras-Moreira ; Carla Cummins ...
 
 
ESC: a comprehensive resource for SARS-CoV-2 immune escape variants border= 
 
Mercy Rophina; Kavita Pandhare; Afra Shamnath; Mohamed Imran ; Bani Jolly ...
 
 
GMrepo v2: a curated human gut microbiome database with special focus on disease markers and cross-dataset comparison border= 
 
Die Dai; Jiaying Zhu; Chuqing Sun ; Min Li; Jinxin Liu ...
 
 
GTDB: an ongoing census of bacterial and archaeal diversity through a phylogenetically consistent, rank normalized and complete genome-based taxonomy border= 
 
Donovan H Parks; Maria Chuvochina; Christian Rinke ; Aaron J Mussig; Pierre-Alain Chaumeil ...
 
 
gutMGene: a comprehensive database for target genes of gut microbes and microbial metabolites border= 
 
Liang Cheng; Changlu Qi; Haixiu Yang ; Minke Lu; Yiting Cai ...
 
 
TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes border= 
 
Jan P Meier-Kolthoff; Joaquim Sardà Carbasse; Rosa L Peinado-Olarte ; Markus Göker
 
 
mBodyMap: a curated database for microbes across human body and their associations with health and diseases border= 
 
Hanbo Jin; Guoru Hu; Chuqing Sun ; Yiqian Duan; Zhenmo Zhang ...
 
 
MVIP: multi-omics portal of viral infection border= 
 
Zhidong Tang; Weiliang Fan; Qiming Li; Dehe Wang ; Miaomiao Wen ...
 
 
The National Microbiome Data Collaborative Data Portal: an integrated multi-omics microbiome data resource 
 
Emiley A Eloe-Fadrosh; Faiza Ahmed; Anubhav; Michal Babinski ; Jeffrey Baumes ...
 
 
PHI-base in 2022: a multi-species phenotype database for Pathogen'Host Interactions border= 
 
Martin Urban; Alayne Cuzick; James Seager ; Valerie Wood; Kim Rutherford ...
 
 
PncsHub: a platform for annotating and analyzing non-classically secreted proteins in Gram-positive bacteria border= 
 
Wei Dai; Jiahui Li; Qi Li ; Jiasheng Cai; Jianzhong Su ...
 
 
SCoV2-MD: a database for the dynamics of the SARS-CoV-2 proteome and variant impact predictions border= 
 
Mariona Torrens-Fontanals; Alejandro Peralta-García; Carmine Talarico ; Ramon Guixà-González; Toni Giorgino ...
 
 
SCovid: single-cell atlases for exposing molecular characteristics of COVID-19 across 10 human tissues border= 
 
Changlu Qi; Chao Wang; Lingling Zhao ; Zijun Zhu; Ping Wang ...
 
 
The current state of SubtiWiki, the database for the model organism Bacillus subtilis border= 
 
Tiago Pedreira; Christoph Elfmann; Jörg Stülke
 
 
T-CoV: a comprehensive portal of HLA-peptide interactions affected by SARS-CoV-2 mutations border= 
 
Stepan Nersisyan; Anton Zhiyanov; Maxim Shkurnikov ; Alexander Tonevitsky
 
 
VarEPS: an evaluation and prewarning system of known and virtual variations of SARS-CoV-2 genomes border= 
 
Qinglan Sun; Chang Shu; Wenyu Shi ; Yingfeng Luo; Guomei Fan ...
 
 
VEuPathDB: the eukaryotic pathogen, vector and host bioinformatics resource center border= 
 
Beatrice Amos; Cristina Aurrecoechea; Matthieu Barba ; Ana Barreto; Evelina Y Basenko ...
 
 
VFDB 2022: a general classification scheme for bacterial virulence factors border= 
 
Bo Liu; Dandan Zheng; Siyu Zhou; Lihong Chen ; Jian Yang
 
 
ViMIC: a database of human disease-related virus mutations, integration sites and cis-effects border= 
 
Ying Wang; Yuantao Tong; Zeyu Zhang ; Rongbin Zheng; Danqi Huang ...
 
 
ViRBase v3.0: a virus and host ncRNA-associated interaction repository with increased coverage and annotation border= 
 
Jun Cheng; Yunqing Lin; Linfu Xu ; Kechen Chen; Qi Li ...
 
 
VThunter: a database for single-cell screening of virus target cells in the animal kingdom border= 
 
Dongsheng Chen; Cong Tan; Peiwen Ding ; Lihua Luo; Jiacheng Zhu ...
 
 
ZOVER: the database of zoonotic and vector-borne viruses border= 
 
Siyu Zhou; Bo Liu; Yelin Han; Yuyang Wang ; Lihong Chen ...
 
 
 
HUMAN GENOME, MODEL ORGANISMS, COMPARATIVE GENOMICS
 
 
 
3DSNP 2.0: update and expansion of the noncoding genomic variant annotation database border= 
 
Cheng Quan; Jie Ping; Hao Lu ; Gangqiao Zhou; Yiming Lu
 
 
Bringing the Animal QTLdb and CorrDB into the future: meeting new challenges and providing updated services border= 
 
Zhi-Liang Hu; Carissa A Park; James M Reecy
 
 
CompoDynamics: a comprehensive database for characterizing sequence composition dynamics border= 
 
Shuai Jiang; Qiang Du; Changrui Feng ; Lina Ma; Zhang Zhang
 
 
Echinobase: leveraging an extant model organism database to build a knowledgebase supporting research on the genomics and biology of echinoderms border= 
 
Bradley I Arshinoff; Gregory A Cary; Kamran Karimi ; Saoirse Foley; Sergei Agalakov ...
 
 
The European Genome-phenome Archive in 2021 border= 
 
Mallory Ann Freeberg; Lauren A Fromont; Teresa D'Altri; Anna Foix Romero ; Jorge Izquierdo Ciges ...
 
 
Ensembl 2022 border= 
 
Fiona Cunningham; James E Allen; Jamie Allen; Jorge Alvarez-Jarreta ; M Ridwan Amode ...
 
 
Ensembl Genomes 2022: an expanding genome resource for non-vertebrates border= 
 
Andrew D Yates; James Allen; Ridwan M Amode; Andrey G Azov ; Matthieu Barba ...
 
 
EWAS Open Platform: integrated data, knowledge and toolkit for epigenome-wide association study border= 
 
Zhuang Xiong; Fei Yang; Mengwei Li ; Yingke Ma; Wei Zhao ...
 
 
FlyAtlas 2 in 2022: enhancements to the Drosophila melanogaster expression atlas border= 
 
Sue A Krause; Gayle Overend; Julian A T Dow ; David P Leader
 
 
Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels border= 
 
Yuansheng Zhang; Dong Zou; Tongtong Zhu ; Tianyi Xu; Ming Chen ...
 
 
Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors border= 
 
Nga Thi Thuy Nguyen; Pierre Vincens; Jean François Dufayard ; Hugues Roest Crollius; Alexandra Louis
 
 
Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses border= 
 
Amy T Walsh; Deborah A Triant; Justin J Le Tourneau ; Md Shamimuzzaman; Christine G Elsik
 
 
InsectBase 2.0: a comprehensive gene resource for insects border= 
 
Yang Mei; Dong Jing; Shenyang Tang; Xi Chen ; Hao Chen ...
 
 
MetazExp: a database for gene expression and alternative splicing profiles and their analyses based on 53 615 public RNA-seq samples in 72 metazoan species border= 
 
Jinding Liu; Fei Yin; Kun Lang ; Wencai Jie; Suxu Tan ...
 
 
DIANA-miTED: a microRNA tissue expression database border= 
 
Ioannis Kavakiotis; Athanasios Alexiou; Spyros Tastsoglou; Ioannis S Vlachos ; Artemis G Hatzigeorgiou
 
 
PhylomeDB V5: an expanding repository for genome-wide catalogues of annotated gene phylogenies border= 
 
Diego Fuentes; Manuel Molina; Uciel Chorostecki ; Salvador Capella-Gutiérrez; Marina Marcet-Houben ...
 
 
PopHumanVar: an interactive application for the functional characterization and prioritization of adaptive genomic variants in humans border= 
 
Aina Colomer-Vilaplana; Jesús Murga-Moreno; Aleix Canalda-Baltrons ; Clara Inserte; Daniel Soto ...
 
 
proChIPdb: a chromatin immunoprecipitation database for prokaryotic organisms border= 
 
Katherine T Decker; Ye Gao; Kevin Rychel; Tahani Al Bulushi ; Siddharth M Chauhan ...
 
 
Regeneration Roadmap: database resources for regenerative biology border= 
 
Wang Kang; Tong Jin; Tao Zhang; Shuai Ma ; Haoteng Yan ...
 
 
RGD v2.0: a major update of the ruminant functional and evolutionary genomics database border= 
 
Weiwei Fu; Rui Wang; Hojjat Asadollahpour Nanaei ; Jinxin Wang; Dexiang Hu ...
 
 
SomaMutDB: a database of somatic mutations in normal human tissues border= 
 
Shixiang Sun; Yujue Wang; Alexander Y Maslov; Xiao Dong ; Jan Vijg
 
 
SPICA: Swiss portal for immune cell analysis border= 
 
Massimo Andreatta; Fabrice P A David; Christian Iseli; Nicolas Guex ; Santiago J Carmona
 
 
The UCSC Genome Browser database: 2022 update border= 
 
Brian T Lee; Galt P Barber; Anna Benet-Pagès; Jonathan Casper ; Hiram Clawson ...
 
 
webTWAS: a resource for disease candidate susceptibility genes identified by transcriptome-wide association study border= 
 
Chen Cao; Jianhua Wang; Devin Kwok ; Feifei Cui; Zilong Zhang ...
 
 
 
GENOMIC VARIATION, DISEASES AND DRUGS
 
 
 
BrainBase: a curated knowledgebase for brain diseases border= 
 
Lin Liu; Yang Zhang; Guangyi Niu; Qianpeng Li ; Zhao Li ...
 
 
CancerMIRNome: an interactive analysis and visualization database for miRNome profiles of human cancer border= 
 
Ruidong Li; Han Qu; Shibo Wang ; John M Chater; Xuesong Wang ...
 
 
CancerSCEM: a database of single-cell expression map across various human cancers border= 
 
Jingyao Zeng; Yadong Zhang; Yunfei Shang ; Jialin Mai; Shuo Shi ...
 
 
CEBS update: curated toxicology database with enhanced tools for data integration 
 
Cari Martini; Ying Frances Liu; Hui Gong; Nicole Sayers ; German Segura ...
 
 
CeDR Atlas: a knowledgebase of cellular drug response border= 
 
Yin-Ying Wang; Hongen Kang; Tianyi Xu; Lili Hao ; Yiming Bao ...
 
 
ConVarT: a search engine for matching human genetic variants with variants from non-human species border= 
 
Mustafa S Pir; Halil I Bilgin; Ahmet Sayici ; Fatih Coşkun; Furkan M Torun ...
 
 
CSCD2: an integrated interactional database of cancer-specific circular RNAs border= 
 
Jing Feng; Wenbo Chen; Xin Dong; Jun Wang ; Xiangfei Mei ...
 
 
CTR-DB, an omnibus for patient-derived gene expression signatures correlated with cancer drug response border= 
 
Zhongyang Liu; Jiale Liu; Xinyue Liu ; Xun Wang; Qiaosheng Xie ...
 
 
DDInter: an online drug'drug interaction database towards improving clinical decision-making and patient safety border= 
 
Guoli Xiong; Zhijiang Yang; Jiacai Yi ; Ningning Wang; Lei Wang ...
 
 
DiseaseMeth version 3.0: a major expansion and update of the human disease methylation database border= 
 
Jie Xing; Ruiyang Zhai; Cong Wang ; Honghao Liu; Jiaqi Zeng ...
 
 
The European Variation Archive: a FAIR resource of genomic variation for all species border= 
 
Timothe Cezard; Fiona Cunningham; Sarah E Hunt ; Baron Koylass; Nitin Kumar ...
 
 
FusionGDB 2.0: fusion gene annotation updates aided by deep learning border= 
 
Pora Kim; Hua Tan; Jiajia Liu; Haeseung Lee ; Hyesoo Jung ...
 
 
GPEdit: the genetic and pharmacogenomic landscape of A-to-I RNA editing in cancers border= 
 
Hang Ruan; Qiang Li; Yuan Liu ; Yaoming Liu; Charles Lussier ...
 
 
 
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