NAR杂志分子生物学数据库整理，快来看看有没有你需要的？

平时我们介绍了很多数据库，今天把核酸研究（NAR）杂志上的一个总结列举出来：

红色的是我们已经介绍过的，有使用链接；蓝色的是今天要简单介绍的：

1. Descriptions of new online databasesin the 2019 NAR Database  issue
Database	URL	Brief description
AleDB	http://	Mutations from Adaptive Laboratory Evolution experiments
AlloMAPS	http://allomaps.bii.	Allosteric signaling and mutations in proteins
AmtDB	https://	Ancient mitochondrial DNA
Ancestral Genomes	http://	Reconstructed ancestral genomes
AWESOME	http://www.	Impact of SNPs on post-translational modifications
Bactome	https://bactome.	Sequences, transcriptomes and phenotypes of clinical isolates  of Pseudomonas auruginosa
CAGm	http://www.	Catalog of all germline microsatellites
CancerSEA	http://biocc./CancerSEA	Cancer single-cell state atlas 推文：扔一个肿瘤单细胞数据库，CancerSEA给你一批思路
CancerSplicingQTL	http://www.	Splicing quantitative trait loci in cancer
CellMarker	http://biocc./CellMarker	Cell markers in human and mouse 推文：很多人一直在问的：细胞标志物（Marker）数据库！
Cell Model Passports	https://cellmodelpassports.	Human cancer cell models
ChIPprimersDB	http://www.	qPCR oligonucleotide primers for chromatin immunoprecipitation (ChIP) 推文: 如何快速获取验证过的ChIP-qPCR实验引物序列？
CMAUP	http://bidd2./CMAUP	Collective molecular activities of useful plants
CoevDB	http://phylodb./CoevDB	Pairwise nucleotide coevolution
CRISPRlnc	http://crisprlnc.	Validated CRISPR/Cas9 sgRNAs for model organism lncRNAs 推文：通过CRISPR对lncRNA进行敲除，sgRNA的序列如何获取？
Cucurbit Genomics Database	http://	Genomics of the Cucurbitaceae family
dbAMP	http://csb.cse./dbAMP	Antimicrobial peptide sequences, structures and properties
DSMNC	http://dsmnc.	Database of somatic mutations in normal cells
EDK	http://bigd./edk	Editome disease knowledgebase
EncoMPASS	https://encompass.ninds.	Encyclopedia of membrane proteins analyzed by structure and symmetry.
EndoDB	https:///software-tools/endodb	Gene expression in endothelial cells
ENPD	http://qinlab.sls./ENPD	Eukaryotic nucleic acid binding proteins
ETCM	http://www./ETCM	Encyclopedia of Traditional Chinese Medicine
EVmiRNA	http://bioinfo.life./EVmiRNA	miRNA in extracellular vesicles 推文：如果你研究外泌体和miRNA，又缺思路，用这个数据库就对了！
EWAS Atlas	http://bigd./ewas	Epigenome-Wide Association Studies
EWASdb	http://www./ewas	Epigenome-Wide Association Studies Atlas
FusionGDB	https://ccsm./FusionGDB	Fusion Gene annotation DataBase
gcMeta	https://gcmeta.	Microbiome research data
Genome Properties	https://www./interpro/genomeproperties	Pathways and other properties represented by sets of protein families
HACER	http://bioinfo./AE/HACER	Human ACtive Enhancer to interpret Regulatory variants
HmtVar	https://www.hmtvar.	Human mitochondrial DNA variants
iDOG	http://bigd./idog	Dog data on genes, SNPs, diseases etc.
iProX	http://www.	Proteomics datasets
jPOSTdb	https://	Japan ProteOme STandard environment
KinaMetrix	http://	Protein kinase models, conformations and ligands
liqDB	http://bioinfo5./liqdb	Small RNA expression profiles in biofluids
LncBook	http://bigd./lncbook	Human lncRNA knowledgebase
MemProtMD	http://memprotmd.bioch.	Membrane Proteins Embedded in Lipid Bilayers
MethMotif	http://bioinfo-csi./methmotif	Transcription factor binding motifs coupled with DNA methylation profiles
NucMap	http://bigd./NucMap	Nucleosome positioning map across species
OncoBase	http://www.oncobase.	Regulatory somatic mutations in human cancers
OpenProt	http://www.	Eukaryotic coding potential and proteomes
Pancan-meQTL	http://bioinfo.life./Pancan-meQTL	Methylation quantitative trait loci in cancer
PDX Finder	http://www.	Patient-derived xenograft models
PED	http://bigd./ped	Plant Editosome Database
PreMedKB	http:///premedkb	Precision medicine knowledgebase
piRTarBase	http://cosbi5.ee./piRTarBase	piRNA targeting sites
Plasmid Atlas	http://www.	Plasmid annotations and metadata
PLSDB	https://ccb-microbe.cs./plsdb	Plasmid annotations and metadata
PopHumanScan	https://pophumanscan.t	Positively selected regions of the human genome
qPhos	http://qphos.	Protein phosphorylation dynamics 推文：研究蛋白磷酸化，这个数据库你知道吗？
RetroRules	http://	Reaction rules for synthetic biology
RNact	http://rnact.	Experimental and predicted protein–RNA interactions in human and mouse
SAGD	http://bioinfo.life./SAGD	Sex-associated gene database
SEdb	http://www./sedb	Super-enhancer database  推文：SEdb：一个“超级”全面的人类超级增强子数据库
SSRome	http://mggm-lab.	Microsatellites in all organisms
SymMap	http://www.	Traditional chinese medicine including symptom mapping
Translocatome	http://translocatome.	Translocating human proteins
Trips-Viz	http://trips.	Transcriptome browser
UniLectin	http://www.	Lectin structure and function
ViBrism DB	https://vibrism.	Tomographic transcriptome and co-expression networks in mouse brain
Victors	http://www./victors	Virulence factors
VMH	http://	Virtual metabolic human
YeastRGB	http://www.yeastRGB.org	Expression and localization of yeast proteins

2. Updated descriptions of databases most recently published  elsewhere
Database	URL	Brief description
CADD	http://cadd.gs.	Combined annotation-dependent  depletion
GENCODE	http://www.	Reference annotation for the human  and mouse genomes.
glycosciences.DB	http://www./database	Glyco-related databases
Haemopedia	http://	Haematopoietic expression data
HumanNet	https://www./humannet	Human gene functional network
LncACTdb	http://www./LncACTdb	lncRNA–miRNA–gene interactions
MoonDB	http://moondb.hb.	Known and predicted multifunctional  proteins in model organisms
OrthoInspector	http:///orthoinspectorv3	Orthologous relations and  phylogenetic profiling
piRBase	http://www.	piRNA function and annotation 推文： 只知miRNA，不知piRNA？那就从这个数据库开始吧！
Stemformatics	http://	Stem cell and other cell-specific  gene expression
UNITE	https://unite.	Internal transcribed spacer  sequences for fungal identification
Vesiclepedia	http://www.	Extracellular vesicles 推文：(工具篇)S5E46：神器之——外泌体数据库大揭秘！

下面我们挑几个部分蓝色的数据库做介绍：

1. AWESOME（SNP对翻译后修饰的影响）   

http://www.

从核酸水平的基因多态性到蛋白水平的翻译后修饰：

展示结果包括了：磷酸化、泛素化、苏木化、糖基化等：

2.ETCM （中药数据库）

http://www./ETCM

我们可以看到这里有单味药、也有复方、成分、靶点和疾病等，我们以黄芪为例：

可以看到比较详细的成分：

靶点、疾病和复方：

产地：

靶基因的功能注释：

以及network：

3. ENPD(真核生物核酸结合蛋白)

 http://qinlab.sls./ENPD

我们可以查看DNA/RNA结合蛋白的信息，比如转录因子和RBPs：

以YBX1为例：

不仅可以看到YBX1的序列：

还有结合的DNA与RNA基序特征：