Gene Page:TCF7L1

Summary?
GeneID 83439
Symbol TCF7L1
Synonyms TCF-3|TCF3
Description transcription factor 7 like 1
Reference MIM:604652|HGNC:HGNC:11640|Ensembl:ENSG00000152284|HPRD:06874|Vega:OTTHUMG00000130026
Gene type protein-coding
Map location 2p11.2
Pascal p-value 0.15
Sherlock p-value 0.727
Fetal beta 0.385
DMG 2 (# studies)
eGene Cerebellum
Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DMG:Nishioka_2013 Genome-wide DNA methylation analysis The authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. 3
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 3
GSMA_I Genome scan meta-analysis Psr: 0.0004

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg21541159 2 85476431 TCF7L1 3.261E-4 0.362 0.04 DMG:Wockner_2014
cg04593571 2 85361052 TCF7L1 3.346E-4 -0.269 0.041 DMG:Wockner_2014
cg02508567 2 85361184 TCF7L1 -0.034 0.43 DMG:Nishioka_2013

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs4501739 chrX 35960848 TCF7L1 83439 0.02 trans

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
ADPRHL2 0.84 0.82
MED22 0.82 0.76
PTOV1 0.81 0.78
SLC35B2 0.81 0.78
C2orf24 0.81 0.79
MAF1 0.80 0.76
ZFPL1 0.80 0.78
COBRA1 0.80 0.78
XKR8 0.79 0.76
TSSC4 0.79 0.76
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AF347015.27 -0.60 -0.67
MT-CO2 -0.58 -0.66
AF347015.8 -0.58 -0.67
AF347015.31 -0.58 -0.65
AF347015.33 -0.57 -0.64
AF347015.21 -0.57 -0.72
MT-CYB -0.56 -0.65
AF347015.15 -0.55 -0.65
C5orf53 -0.53 -0.54
MT-ATP8 -0.53 -0.72

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0003700 transcription factor activity NAS 1741298|11085512
GO:0008013 beta-catenin binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0006350 transcription IEA -
GO:0048319 axial mesoderm morphogenesis IEA -
GO:0006325 establishment or maintenance of chromatin architecture NAS 1741298|11085512
GO:0030111 regulation of Wnt receptor signaling pathway NAS 1741298|11085512
GO:0008595 determination of anterior/posterior axis, embryo IEA -
GO:0048863 stem cell differentiation IEA -
GO:0045892 negative regulation of transcription, DNA-dependent IEA -
GO:0046022 positive regulation of transcription from RNA polymerase II promoter, mitotic IEA -
细胞混合涂料nent 去的术语 Evidence Neuro keywords PubMed ID
GO:0005634 nucleus NAS 1741298|11085512

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG WNT SIGNALING PATHWAY 151 112 All SZGR 2.0 genes in this pathway
KEGG ADHERENS JUNCTION 75 53 All SZGR 2.0 genes in this pathway
KEGG MELANOGENESIS 102 80 All SZGR 2.0 genes in this pathway
KEGG PATHWAYS IN CANCER 328 259 All SZGR 2.0 genes in this pathway
KEGG COLORECTAL CANCER 62 47 All SZGR 2.0 genes in this pathway
KEGG ENDOMETRIAL CANCER 52 45 All SZGR 2.0 genes in this pathway
KEGG PROSTATE CANCER 89 75 All SZGR 2.0 genes in this pathway
KEGG THYROID CANCER 29 26 All SZGR 2.0 genes in this pathway
KEGG BASAL CELL CARCINOMA 55 44 All SZGR 2.0 genes in this pathway
KEGG ACUTE MYELOID LEUKEMIA 60 47 All SZGR 2.0 genes in this pathway
KEGG ARRHYTHMOGENIC RIGHT VENTRICULAR CARDIOMYOPATHY ARVC 76 59 All SZGR 2.0 genes in this pathway
WNT SIGNALING 89 71 All SZGR 2.0 genes in this pathway
PID BETA CATENIN NUC PATHWAY 80 60 All SZGR 2.0 genes in this pathway
PID DELTA NP63 PATHWAY 47 34 All SZGR 2.0 genes in this pathway
DAVICIONI TARGETS OF PAX FOXO1 FUSIONS UP 255 177 All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS DN 142 95 All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA DN 394 258 All SZGR 2.0 genes in this pathway
FARMER BREAST CANCER BASAL VS LULMINAL 330 215 All SZGR 2.0 genes in this pathway
GROSS ELK3 TARGETS UP 27 16 All SZGR 2.0 genes in this pathway
GROSS HIF1A TARGETS UP 8 5 All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP 811 508 All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS DN 411 249 All SZGR 2.0 genes in this pathway
BENPORATH ES 1 379 235 All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS 988 594 All SZGR 2.0 genes in this pathway
BENPORATH OCT4 TARGETS 290 172 All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS 734 436 All SZGR 2.0 genes in this pathway
BENPORATH NOS TARGETS 179 105 All SZGR 2.0 genes in this pathway
BENPORATH ES CORE NINE CORRELATED 100 68 All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN 464 276 All SZGR 2.0 genes in this pathway
MANALO HYPOXIA UP 207 145 All SZGR 2.0 genes in this pathway
MATSUDA NATURAL KILLER DIFFERENTIATION 475 313 All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL LONG TERM 302 191 All SZGR 2.0 genes in this pathway
DELASERNA MYOD TARGETS DN 57 42 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 1691 1088 All SZGR 2.0 genes in this pathway
NIKOLSKY OVERCONNECTED IN BREAST CANCER 22 19 All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP 430 288 All SZGR 2.0 genes in this pathway
乳腺癌萧述三腔的DN 564 326 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL UP 648 398 All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN 546 362 All SZGR 2.0 genes in this pathway
BHATI G2M ARREST BY 2METHOXYESTRADIOL DN 127 75 All SZGR 2.0 genes in this pathway
WONG EMBRYONIC STEM CELL CORE 335 193 All SZGR 2.0 genes in this pathway
NIELSEN MALIGNAT FIBROUS HISTIOCYTOMA DN 18 11 All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 24HR DN 505 328 All SZGR 2.0 genes in this pathway
BAKKER FOXO3 TARGETS DN 187 109 All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080 713 All SZGR 2.0 genes in this pathway
RAO受SALL4同种型B 517 302 All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489 314 All SZGR 2.0 genes in this pathway
DURAND STROMA S UP 297 194 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-132/212 103 109 m8 hsa-miR-212SZ UAACAGUCUCCAGUCACGGCC
hsa-miR-132brain UAACAGUCUACAGCCAUGGUCG
miR-204/211 619 625 m8 hsa-miR-204brain UUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211 UUCCCUUUGUCAUCCUUCGCCU
miR-30-3p 229 236 1A,m8 hsa-miR-30a-3p CUUUCAGUCGGAUGUUUGCAGC
hsa-miR-30e-3p CUUUCAGUCGGAUGUUUACAGC
miR-329 828 834 1A hsa-miR-329brain AACACACCUGGUUAACCUCUUU