Gene Page:TFG

Summary?
GeneID 10342
Symbol TFG
Synonyms HMSNP|SPG57|TF6|TRKT3
Description TRK-fused gene
Reference MIM:602498|HGNC:HGNC:11758|Ensembl:ENSG00000114354|HPRD:03932|Vega:OTTHUMG00000159085
Gene type protein-coding
Map location 3q12.2
Pascal p-value 0.828
Sherlock p-value 0.655
Fetal beta 0.583
eGene Frontal Cortex BA9
Support CompositeSet

Gene in Data Sources
Gene set name Method of gene set Description Info
DNM:Fromer_2014 Whole Exome Sequencing analysis This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.
GSMA_IIE Genome scan meta-analysis (European-ancestry samples) Psr: 0.04359
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.04047
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

@DNM table

Gene Chromosome Position Ref Alt Transcript AA change Mutation type Sift CG46 Trait Study
TFG chr3 100467119 C T NM_001007565
NM_001195478
NM_001195479
NM_006070		 p.316P>L
p.316P>L
p.312P>L
p.316P>L		 missense
missense
missense
missense		 Schizophrenia DNM:Fromer_2014


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
ACTR1A 0.94 0.94
UBA1 0.93 0.93
RIC8A 0.93 0.93
CHTF8 0.93 0.93
C20orf4 0.93 0.93
DPH1 0.93 0.93
DEDD 0.92 0.91
TRPC4AP 0.92 0.94
DOLPP1 0.92 0.92
ZNF574 0.92 0.94
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
MT-CO2 -0.80 -0.87
AF347015.27 -0.80 -0.87
AF347015.31 -0.79 -0.85
AF347015.8 -0.79 -0.88
MT-CYB -0.78 -0.85
AF347015.33 -0.77 -0.84
AF347015.21 -0.77 -0.91
AF347015.15 -0.74 -0.84
AF347015.2 -0.73 -0.82
AF347015.26 -0.72 -0.83

Section III. Gene Ontology annotation

Molecular function GO term Evidence Neuro keywords PubMed ID
GO:0004714 transmembrane receptor protein tyrosine kinase activity IEA neurite (GO term level: 8) -
GO:0000166 nucleotide binding IEA -
GO:0004872 receptor activity IEA -
GO:0004871 signal transducer activity IMP 12761501
GO:0005524 ATP binding IEA -
GO:0016740 transferase activity IEA -
GO:0042802 identical protein binding IEA -
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0007169 跨膜受体蛋白酪氨酸激酶团体naling pathway IEA -
GO:0006468 protein amino acid phosphorylation IEA -
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB cascade IMP 12761501
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005737 cytoplasm NAS 7565764
GO:0016020 membrane IEA -
GO:0016021 integral to membrane IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG PATHWAYS IN CANCER 328 259 All SZGR 2.0 genes in this pathway
KEGG THYROID CANCER 29 26 All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 DN 267 178 All SZGR 2.0 genes in this pathway
SENGUPTA NASOPHARYNGEAL CARCINOMA WITH LMP1 UP 408 247 All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382 904 All SZGR 2.0 genes in this pathway
TIEN INTESTINE PROBIOTICS 24HR DN 214 133 All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 3 UP 329 196 All SZGR 2.0 genes in this pathway
SCHEIDEREIT IKK INTERACTING PROTEINS 58 45 All SZGR 2.0 genes in this pathway
CALVET IRINOTECAN SENSITIVE VS RESISTANT DN 5 5 All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN 584 395 All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037 673 All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS 957 597 All SZGR 2.0 genes in this pathway
JIANG HYPOXIA NORMAL 311 205 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP 973 570 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP 863 514 All SZGR 2.0 genes in this pathway
GRADE METASTASIS DN 45 31 All SZGR 2.0 genes in this pathway
GRESHOCK CANCER COPY NUMBER UP 323 240 All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO CSF2RB AND IL4 UP 338 225 All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF UP 418 282 All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 DN 245 150 All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER POOR SURVIVAL A6 456 285 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-142-3p 228 234 m8 hsa-miR-142-3p UGUAGUGUUUCCUACUUUAUGGA