Cross-Speices Brain Atlas in the light of evolution

: Card; Card information

: Association; Association

: Regulation; Regulation

: Dissecting; Dissecting the correlation of gene lists

: DissectEvo; Gene expression patterns

: Embryo_sc; scEggMuGA

: Embryo_st; stEggMuGA

: RatingList; Enrichment (ToppGene and Poster)

: SpeciesDyn; SpeciesDyn

: PathologyDyn; PathologyDyn

: EmbryogenesisDyn; EmbryogenesisDyn

: AnatomyDyn; AnatomyDyn

: RegionDyn; RegionDyn

: SpaceDyn; SpaceDyn

: ExternalLink; ExternalLink

: NaviA2Z; NaviA2Z

: Download; Download

Part01: Card information and Cellular communication (cell2cell network)

Dataset information
Cellular communications
C2C conservation

Cellular crosstalk
Signaling pathway
Ligand-receptor

View ligand-receptor mediated cellular communications

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Source
Target
Ligand
Receptor
Prob
Pval
Interaction Name
Interaction Name 2
Pathway_name
Annotation
Evidence

Conservation of C2C

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entries

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Part02: Assessment of PPI (protein-protein interaction network)

Association

PPI

Part03: Regulatory network

Genetic regulatory networks
GO term
Regulon shiny

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entries

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Part04: Dissecting receptor expression patterns (PCR, Pathogen and cell receptor mediated network)

Dissecting

Virus target gene selection

Virus Family
Virus
Classification
Species
BSID

View virus and host information

Virus information

Virus:Coxsackievirus A9

Family:Picornaviridae

Host:Homo sapiens (Human)

Target Gene:ITGB3,ITGAV,ITGB6

Dataset information

BSID: BS0001749

Classification: Mammals

CommonName: Human

LatinName: Homo sapiens

BrainRegion: Substantia nigra pars compacta

Timing: 75Y;82Y;90Y;76Y;83Y;78Y

Diseases: Parkinson's disease

Tech: Chromiumv3

CellNum: 142881

Title: Single-cell genomic profiling of human dopamine neurons identifies a population that selectively degenerates in Parkinson's disease

Journal: Nature Neuroscience

PMID: 35513515

Matrix Download : Click to download

Shinycell: View data

All Target Gene
ITGB3
ITGAV
ITGB6

Virus target gene expression

View expression summary

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VirusID
Virus
Gene
Celltype
MeanExpression

Virus target gene expression

mRNA expression of ITGB3 in human tissues [NCBI]

Protein expression of ITGB3 in human tissues [Proteinatlas]

Virus target gene expression

mRNA expression of ITGAV in human tissues [NCBI]

Protein expression of ITGAV in human tissues [Proteinatlas]

Virus target gene expression

mRNA expression of ITGB6 in human tissues [NCBI]

Protein expression of ITGB6 in human tissues [Proteinatlas]

Part05: Dissecting gene expression patterns across species during evolution

Gene expression patterns

Part06: Embryo atlas and gene expression dynamics at single-cell resolution

scEggMuGA

Gene list

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entries

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

Unfold all

Part07: Embryo atlas and gene expression dynamics at spatial resolution

stEggMuGA

Gene list

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

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Part08: Rating of gene list by ToppGene and Poster enrichment

ToppGene enrichment
Poster enrichment

Gene list
ToppGene enrichment
PPI
Motif enrichment

Celltype: cell type; Symbol: gene symbol; p_val: p value; avg_log2FC: average logfc between two groups; p_val_adj: adjusted p-value;

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Toppgen enrichment analysis of genelist

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Category
ID
Name
PValue
QValueFDRBH
QValueFDRBY
Detail

{{item.name}}

Mode 1: select BSID

Classification
Species
Tissue

Dataset information

BSID: {{dataInfo.BSID}}

Classification: {{dataInfo.Classification}}

CommonName: {{dataInfo.CommonName}}

LatinName: {{dataInfo.LatinName}}

BrainRegion:{{dataInfo.Region}}

Timing:{{dataInfo.Timing}}

Diseases: {{dataInfo.Diseases}}

Tech: {{dataInfo.Diseases}}

CellNum: {{dataInfo.Tech}}

Title: {{dataInfo.Title}}

Journal: {{dataInfo.Journal}}

PMID: {{dataInfo.PMID}}

Matrix Download : Click to download

Shinycell: View data

Mode 2: select gene list

Gene List
scRNASeq
Spatial Transcriptomics

Input Genes

Choose a subsection

Dimensions

Choose file Only .csv and .h5ad file types accepted for online analysis. Download Demo (Detail of Demo dataset ).

Top 10 Enriched Dimensions

Top 30 Enriched Dimensions

List of Enriched Dimensions

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Tag
Intersect gene num
p val
p val adj

Part09: SpeciesDyn

SpeciesDyn

Gene list

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entries

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

Species

Part10: PathologyDyn

PathologyDyn

Gene list

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entries

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

Part11: EmbryogenesisDyn

EmbryogenesisDyn

Gene list

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entries

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

Devo

Part12: AnatomyDyn

AnatomyDyn

Gene list

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entries

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

Tissue

Part13: RegionDyn

RegionDyn

Gene list

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entries

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

Region

Part14: SpaceDyn

SpaceDyn

Gene list

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entries

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GeneSymbol
EnsembllD
GeneCard Link
NCBI Link
Ensembl Link
UniProt Link

Space

The geneset you selected is:

Species
Tissue
Devo
Diz

View gene expression profiles of different chips

Show me

Part15: ExternalLink

ExternalLink

Part16: NaviA2Z

NaviA2Z

Part17: Download

Download