我们介绍的各种神器多半是从这里来的，你知道吗？
翻看下日历，这都1月24号啦，留给中国队的时间不多了！
幸好川普又让Pubmed活过来了（讲真，Pubmed也没死啊~）；幸好，StarBase又可以用了；幸好核酸研究又放出了一大波的数据库。。。（doi: 10.1093/nar/gkx1235）。
快扒拉扒拉看看能不能从这些数据库里补足自己立项的论据！
2018年Nucleic Acids Research数据库特辑上发表的新数据库
Database
URL
Brief description
3DIV
http://kobic.kr/3div
3D-genome Interaction Viewer and database
AAgMarker
http://bioinfo.wilmer.jhu.edu/AAgMarker/index.jsp
Serum autoantigen biomarkers from proteome microarrays
aBiofilm
http://bioinfo.imtech.res.in/manojk/abiofilm/
Anti-biofilm compounds
ActiveDriverDB
https://activedriverdb.org/
Genome variation mapped against post-translational modifications
ADReCS-Target
http://bioinf.xmu.edu.cn/ADReCS-Target
Adverse Drug Reactions linked to proteins, genes and genetic variants
AmyPro
http://amypro.net
Proteins with validated amyloidogenic regions
anti-CRISPRdb
http://cefg.uestc.edu.cn/anti-CRISPRdb/
anti-CRISPR proteins
AraGWAS Catalog
https://aragwas.1001genomes.org
Arabidopsis Genome-Wide Association Studies
ASpedia
http://combio.snu.ac.kr/aspedia
Alternative Splicing Encylopedia
ChannelsDB
http://ncbr.muni.cz/ChannelsDB
Channels, pores and tunnels found in biomacromolecular structures
CirGRDB
http://cirgrdb.biols.ac.cn
Regulation of RNAs in circadian rhythms
ClusterCAD
https://clustercad.jbei.org and http://clustercad.igb.uci.edu
Engineering of type I modular polyketide synthases
CR2Cancer
http://cis.hku.hk/CR2Cancer
Chromatin Regulators and Cancer
CSCD
http://gb.whu.edu.cn/CSCD
Cancer-Specific cRNA Database
dbCAN-seq
http://cys.bios.niu.edu/dbCAN
Genome scale CAZymes and CAZyme gene clusters
dbCoRC
http://dbcorc.cam-su.org/
Core transcriptional Regulatory Circuit models
DifferentialNET
http://netbio.bgu.ac.il/diffnet
Differential protein-protein interactions in human tissues
DiseaseEnhancer
http://biocc.hrbmu.edu.cn/DiseaseEnhancer/
Enhancer-disease associations
DISNOR
http://disnor.uniroma2.it/
Protein interaction networks linking disease genes
DreamBASE
http://rna.sysu.edu.cn/dreamBase
Human expressed pseudogenes: DNA Modification, RNA Regulation and bound proteins
ECOdrug
http://www.ecodrug.org
Evolutionary COnservation of Drug targets
EpiDenovo
http://61.148.58.210:8080/EpiDenovo/
The epigenome in mammalian embryonic development
EPD
https://peptracker.com/epd/
Encyclopedia of Protein Dynamics
EVLncRNAs
http://biophy.dzu.edu.cn/EVLncRNAs/
Experimentally Validated lncRNAs including disease indications
eRAM
http://www.unimd.org/eram/
Annotated rare diseases
ExoRBase
http://www.exoRBase.org
Human blood exosome RNAs
FlavorDB
http://cosylab.iiitd.edu.in/flavordb
Flavour molecules
FusionDB
http://services.bromberglab.org/fusiondb/
Functional-repertoire similarity-based organism network
GVM
http://bigd.big.ac.cn/gvm/
Genome Variation Map
HCMDB
http://hcmdb.i-sanger.com/index
Human Cancer Metastasis DataBase
HEDD
http://zdzlab.einstein.yu.edu/1/hedd.php
Human Enhancer Disease Database
ICG
http://icg.big.ac.cn
Internal Control Genes for RT-qPCR normalization
IMOTA
https://ccb-web.cs.uni-saarland.de/imota/
Interactive Multi-Omics-Tissue Atlas
iPTMnet
http://research.bioinformatics.udel.edu/iptmnet/
Post-Translational Modification networks
ITSoneDB
http://itsonedb.cloud.ba.infn.it/
Eukaryotic ribosomal RNA Internal Transcribed Spacer 1 sequences
jMorp
https://jmorp.megabank.tohoku.ac.jp/
Metabolomics and proteomics of 1000 healthy Japanese people
LINCS Data Portal
http://lincsportal.ccs.miami.edu/dcic-portal/
Cell-based perturbation-response signatures
LinkedOmics
http://www.linkedomics.org
Multi-omics analysis of 32 cancers
Lnc2Meth
http://www.bio-bigdata.com/Lnc2Meth
lncRNAs and DNA methylation
m6AVar
http://m6avar.renlab.org/
Human variants affecting m6A sites
MeDReaders
http://medreader.org/
Transcription factors binding methylated DNA
microbiomeDB
http://microbiomeDB.org
Mining and analysing microbiome data
MINTbase
https://cm.jefferson.edu/MINTbase/
Mitochondrial and nuclear tRNA fragments
miRCarta
https://mircarta.cs.uni-saarland.de/
miRNAs and precursors
mirTrans
http://mcube.nju.edu.cn/jwang/lab/soft/mirtrans/
Cell-specific transcriptional information for human miRNAs
MIST
http://fgrtools.hms.harvard.edu/ProteinSearch/
Model organism molecular interaction data
MGA
http://ccg.vital-it.ch/mga/
Mass Genome Annotation
MMP
https://mmp.sfb.uit.no/databases/
Marine Metagenomics Portal
MSDD
http://www.bio-bigdata.com/msdd/
miRNA SNP Disease Database
mSignatureDB
http://tardis.cgu.edu.tw/msignaturedb
Mutational signatures in human cancers
MVP
http://mvp.medgenius.info
Microbe-phage interactions
NPASS
http://bidd2.nus.edu.sg/NPASS/
Natural Product quantitative Activities
OverGeneDB
http://overgenedb.amu.edu.pl
Overlapping protein-coding genes
PAMDB
http://pseudomonas.umaryland.edu
Pseudomonas aeruginosa Metabolome DataBase
PancanQTL
http://bioinfo.life.hust.edu.cn/PancanQTL/
Expression quantitative loci (eQTL) analysis of cancer samples
PedAM
http://www.unimd.org/pedam/
Pediatric Disease Annotation & Medicine
PCSD
http://systemsbiology.cau.edu.cn/chromstates
Plant Chromatin State Database
PGG.Population
https://www.pggpopulation.org
Genomic diversity of diverse human populations
PharmacoDB
http://pharmacodb.pmgenomics.ca
Pharmacogenomics of cancer cell lines
PICKLES
http://pickles.hart-lab.org
Pooled In-vitro Crispr Knockout Library Essentiality Screens
PIT-DB
http://pitdb.org
Proteomics Informed by Transcriptomics
Planteome
http://www.planteome.org
Portal for plant ontologies and annotations
PopHuman
http://pophuman.uab.cat
Population genomics-oriented genome browser
qPrimerDB
http://biodb.swu.edu.cn/qprimerdb
qPCR primers for 200 organisms
RISE
http://rise.zhanglab.net
RNA-RNA interactions
RNArchitecture
http://iimcb.genesilico.pl/RNArchitecture/
Structural classification of RNAs
SBCCDB
http://sbcddb.moffitt.org
Sleeping Beauty Cancer Driver DataBase
SCPortalen
http://single-cell.clst.riken.jp/
Human and mouse single-cell centric database
SEECancer
http://biocc.hrbmu.edu.cn/SEECancer
Evolutionary-stage specific somatic events in cancer
StemMapper
http://stemmapper.sysbiolab.eu
Stem cell gene expression
STCRDab
http://opig.stats.ox.ac.uk/webapps/stcrdab
Structural T-Cell Receptor Database
SysteMHC Atlas
https://systemhcatlas.org/
Immunopeptidomics of MHC-bound peptides
Tabloid Proteome
http://iomics.ugent.be/tabloidproteome
Protein associations inferred from Mass Spectrometry
Target-Pathogen
http://target.sbg.qb.fcen.uba.ar/patho
Drug target optimisation in pathogens
TC3A
http://tc3a.org/
3’ untranslated regions, alternative polyadenylation and cancer
TissGDB
http://zhaobioinfo.org/TissGDB
Tissue-specific Gene DataBase in cancer
TranslatomeDB
http://www.translatomedb.net/
Translatome data from RNC-Seq and Ribo-Seq
TriForC database
http://bioinformatics.psb.ugent.be/triforc/
Triterpene pathways
TCSBN
http://inetmodels.com
Tissue and Cancer-Specific Biological Networks
VarCards
http://varcards.biols.ac.cn/
Interpretation of coding variants in the human genome
VDJdb
https://vdjdb.cdr3.net/.
T-cell receptor sequences with known antigen specificity
Virus Taxonomy
http://ictv.global
Taxonomy of viruses
2018年Nucleic Acids Research更新了的老数据库
Database
URL
Brief description
BioMuta and BioExpress
https://hive.biochemistry.gwu.edu/biomuta and https://hive.biochemistry.gwu.edu/bioxpress
Cancer SNVs and gene expression
BioStudies
https://www.ebi.ac.uk/biostudies/
Data of all kinds relating to a single study
iSyTE
http://research.bioinformatics.udel.edu/iSyTE
integrated Systems Tool for Eye gene discovery
miRandola
http://mirandola.iit.cnr.it/
Extracellular and circulating non-coding RNAs
mirDIP
http://ophid.utoronto.ca/mirDIP/
microRNA Data Integration Portal
MNDR
http://www.rna-society.org/mndr/
Mammal ncRNA-Disease Repository
NLSdb
https://rostlab.org/services/nlsdb/
Nuclear Localization Signals
PAGER 2.0
http://discovery.informatics.uab.edu/PAGER/
Pathway, Annotated-list, and Gene-signature Electronic Repositor
ProteomicsDB
https://www.ProteomicsDB.org
Mass spectrometry of the human proteome
PULDB
http://www.cazy.org/PULDB new/
Polysaccharide Utilization Loci in Bacteroidetes species
ReMap
http://remap.cisreg.eu
Transcription factor ChIP-seq data
RMDB
http://rmdb.stanford.edu
Structure mapping of RNA
SuperDrug2
http://cheminfo.charite.de/superdrug2
Approved drugs
TRRUST v2
http://www.grnpedia.org/trrust/
Transcriptional regulatory interactions in human and mouse
TumorFusions
http://www.tumorfusions.org
Tumour fusion genes
翻看下日历，这都1月24号啦，留给中国队的时间不多了！
幸好川普又让Pubmed活过来了（讲真，Pubmed也没死啊~）；幸好，StarBase又可以用了；幸好核酸研究又放出了一大波的数据库。。。（doi: 10.1093/nar/gkx1235）。
快扒拉扒拉看看能不能从这些数据库里补足自己立项的论据！
2018年Nucleic Acids Research数据库特辑上发表的新数据库
| Database | URL | Brief description |
| 3DIV | http://kobic.kr/3div | 3D-genome Interaction Viewer and database |
| AAgMarker | http://bioinfo.wilmer.jhu.edu/AAgMarker/index.jsp | Serum autoantigen biomarkers from proteome microarrays |
| aBiofilm | http://bioinfo.imtech.res.in/manojk/abiofilm/ | Anti-biofilm compounds |
| ActiveDriverDB | https://activedriverdb.org/ | Genome variation mapped against post-translational modifications |
| ADReCS-Target | http://bioinf.xmu.edu.cn/ADReCS-Target | Adverse Drug Reactions linked to proteins, genes and genetic variants |
| AmyPro | http://amypro.net | Proteins with validated amyloidogenic regions |
| anti-CRISPRdb | http://cefg.uestc.edu.cn/anti-CRISPRdb/ | anti-CRISPR proteins |
| AraGWAS Catalog | https://aragwas.1001genomes.org | Arabidopsis Genome-Wide Association Studies |
| ASpedia | http://combio.snu.ac.kr/aspedia | Alternative Splicing Encylopedia |
| ChannelsDB | http://ncbr.muni.cz/ChannelsDB | Channels, pores and tunnels found in biomacromolecular structures |
| CirGRDB | http://cirgrdb.biols.ac.cn | Regulation of RNAs in circadian rhythms |
| ClusterCAD | https://clustercad.jbei.org and http://clustercad.igb.uci.edu | Engineering of type I modular polyketide synthases |
| CR2Cancer | http://cis.hku.hk/CR2Cancer | Chromatin Regulators and Cancer |
| CSCD | http://gb.whu.edu.cn/CSCD | Cancer-Specific cRNA Database |
| dbCAN-seq | http://cys.bios.niu.edu/dbCAN | Genome scale CAZymes and CAZyme gene clusters |
| dbCoRC | http://dbcorc.cam-su.org/ | Core transcriptional Regulatory Circuit models |
| DifferentialNET | http://netbio.bgu.ac.il/diffnet | Differential protein-protein interactions in human tissues |
| DiseaseEnhancer | http://biocc.hrbmu.edu.cn/DiseaseEnhancer/ | Enhancer-disease associations |
| DISNOR | http://disnor.uniroma2.it/ | Protein interaction networks linking disease genes |
| DreamBASE | http://rna.sysu.edu.cn/dreamBase | Human expressed pseudogenes: DNA Modification, RNA Regulation and bound proteins |
| ECOdrug | http://www.ecodrug.org | Evolutionary COnservation of Drug targets |
| EpiDenovo | http://61.148.58.210:8080/EpiDenovo/ | The epigenome in mammalian embryonic development |
| EPD | https://peptracker.com/epd/ | Encyclopedia of Protein Dynamics |
| EVLncRNAs | http://biophy.dzu.edu.cn/EVLncRNAs/ | Experimentally Validated lncRNAs including disease indications |
| eRAM | http://www.unimd.org/eram/ | Annotated rare diseases |
| ExoRBase | http://www.exoRBase.org | Human blood exosome RNAs |
| FlavorDB | http://cosylab.iiitd.edu.in/flavordb | Flavour molecules |
| FusionDB | http://services.bromberglab.org/fusiondb/ | Functional-repertoire similarity-based organism network |
| GVM | http://bigd.big.ac.cn/gvm/ | Genome Variation Map |
| HCMDB | http://hcmdb.i-sanger.com/index | Human Cancer Metastasis DataBase |
| HEDD | http://zdzlab.einstein.yu.edu/1/hedd.php | Human Enhancer Disease Database |
| ICG | http://icg.big.ac.cn | Internal Control Genes for RT-qPCR normalization |
| IMOTA | https://ccb-web.cs.uni-saarland.de/imota/ | Interactive Multi-Omics-Tissue Atlas |
| iPTMnet | http://research.bioinformatics.udel.edu/iptmnet/ | Post-Translational Modification networks |
| ITSoneDB | http://itsonedb.cloud.ba.infn.it/ | Eukaryotic ribosomal RNA Internal Transcribed Spacer 1 sequences |
| jMorp | https://jmorp.megabank.tohoku.ac.jp/ | Metabolomics and proteomics of 1000 healthy Japanese people |
| LINCS Data Portal | http://lincsportal.ccs.miami.edu/dcic-portal/ | Cell-based perturbation-response signatures |
| LinkedOmics | http://www.linkedomics.org | Multi-omics analysis of 32 cancers |
| Lnc2Meth | http://www.bio-bigdata.com/Lnc2Meth | lncRNAs and DNA methylation |
| m6AVar | http://m6avar.renlab.org/ | Human variants affecting m6A sites |
| MeDReaders | http://medreader.org/ | Transcription factors binding methylated DNA |
| microbiomeDB | http://microbiomeDB.org | Mining and analysing microbiome data |
| MINTbase | https://cm.jefferson.edu/MINTbase/ | Mitochondrial and nuclear tRNA fragments |
| miRCarta | https://mircarta.cs.uni-saarland.de/ | miRNAs and precursors |
| mirTrans | http://mcube.nju.edu.cn/jwang/lab/soft/mirtrans/ | Cell-specific transcriptional information for human miRNAs |
| MIST | http://fgrtools.hms.harvard.edu/ProteinSearch/ | Model organism molecular interaction data |
| MGA | http://ccg.vital-it.ch/mga/ | Mass Genome Annotation |
| MMP | https://mmp.sfb.uit.no/databases/ | Marine Metagenomics Portal |
| MSDD | http://www.bio-bigdata.com/msdd/ | miRNA SNP Disease Database |
| mSignatureDB | http://tardis.cgu.edu.tw/msignaturedb | Mutational signatures in human cancers |
| MVP | http://mvp.medgenius.info | Microbe-phage interactions |
| NPASS | http://bidd2.nus.edu.sg/NPASS/ | Natural Product quantitative Activities |
| OverGeneDB | http://overgenedb.amu.edu.pl | Overlapping protein-coding genes |
| PAMDB | http://pseudomonas.umaryland.edu | Pseudomonas aeruginosa Metabolome DataBase |
| PancanQTL | http://bioinfo.life.hust.edu.cn/PancanQTL/ | Expression quantitative loci (eQTL) analysis of cancer samples |
| PedAM | http://www.unimd.org/pedam/ | Pediatric Disease Annotation & Medicine |
| PCSD | http://systemsbiology.cau.edu.cn/chromstates | Plant Chromatin State Database |
| PGG.Population | https://www.pggpopulation.org | Genomic diversity of diverse human populations |
| PharmacoDB | http://pharmacodb.pmgenomics.ca | Pharmacogenomics of cancer cell lines |
| PICKLES | http://pickles.hart-lab.org | Pooled In-vitro Crispr Knockout Library Essentiality Screens |
| PIT-DB | http://pitdb.org | Proteomics Informed by Transcriptomics |
| Planteome | http://www.planteome.org | Portal for plant ontologies and annotations |
| PopHuman | http://pophuman.uab.cat | Population genomics-oriented genome browser |
| qPrimerDB | http://biodb.swu.edu.cn/qprimerdb | qPCR primers for 200 organisms |
| RISE | http://rise.zhanglab.net | RNA-RNA interactions |
| RNArchitecture | http://iimcb.genesilico.pl/RNArchitecture/ | Structural classification of RNAs |
| SBCCDB | http://sbcddb.moffitt.org | Sleeping Beauty Cancer Driver DataBase |
| SCPortalen | http://single-cell.clst.riken.jp/ | Human and mouse single-cell centric database |
| SEECancer | http://biocc.hrbmu.edu.cn/SEECancer | Evolutionary-stage specific somatic events in cancer |
| StemMapper | http://stemmapper.sysbiolab.eu | Stem cell gene expression |
| STCRDab | http://opig.stats.ox.ac.uk/webapps/stcrdab | Structural T-Cell Receptor Database |
| SysteMHC Atlas | https://systemhcatlas.org/ | Immunopeptidomics of MHC-bound peptides |
| Tabloid Proteome | http://iomics.ugent.be/tabloidproteome | Protein associations inferred from Mass Spectrometry |
| Target-Pathogen | http://target.sbg.qb.fcen.uba.ar/patho | Drug target optimisation in pathogens |
| TC3A | http://tc3a.org/ | 3’ untranslated regions, alternative polyadenylation and cancer |
| TissGDB | http://zhaobioinfo.org/TissGDB | Tissue-specific Gene DataBase in cancer |
| TranslatomeDB | http://www.translatomedb.net/ | Translatome data from RNC-Seq and Ribo-Seq |
| TriForC database | http://bioinformatics.psb.ugent.be/triforc/ | Triterpene pathways |
| TCSBN | http://inetmodels.com | Tissue and Cancer-Specific Biological Networks |
| VarCards | http://varcards.biols.ac.cn/ | Interpretation of coding variants in the human genome |
| VDJdb | https://vdjdb.cdr3.net/. | T-cell receptor sequences with known antigen specificity |
| Virus Taxonomy | http://ictv.global | Taxonomy of viruses |
2018年Nucleic Acids Research更新了的老数据库
| Database | URL | Brief description |
| BioMuta and BioExpress | https://hive.biochemistry.gwu.edu/biomuta and https://hive.biochemistry.gwu.edu/bioxpress | Cancer SNVs and gene expression |
| BioStudies | https://www.ebi.ac.uk/biostudies/ | Data of all kinds relating to a single study |
| iSyTE | http://research.bioinformatics.udel.edu/iSyTE | integrated Systems Tool for Eye gene discovery |
| miRandola | http://mirandola.iit.cnr.it/ | Extracellular and circulating non-coding RNAs |
| mirDIP | http://ophid.utoronto.ca/mirDIP/ | microRNA Data Integration Portal |
| MNDR | http://www.rna-society.org/mndr/ | Mammal ncRNA-Disease Repository |
| NLSdb | https://rostlab.org/services/nlsdb/ | Nuclear Localization Signals |
| PAGER 2.0 | http://discovery.informatics.uab.edu/PAGER/ | Pathway, Annotated-list, and Gene-signature Electronic Repositor |
| ProteomicsDB | https://www.ProteomicsDB.org | Mass spectrometry of the human proteome |
| PULDB | http://www.cazy.org/PULDB new/ | Polysaccharide Utilization Loci in Bacteroidetes species |
| ReMap | http://remap.cisreg.eu | Transcription factor ChIP-seq data |
| RMDB | http://rmdb.stanford.edu | Structure mapping of RNA |
| SuperDrug2 | http://cheminfo.charite.de/superdrug2 | Approved drugs |
| TRRUST v2 | http://www.grnpedia.org/trrust/ | Transcriptional regulatory interactions in human and mouse |
| TumorFusions | http://www.tumorfusions.org | Tumour fusion genes |
