Gene Page: TTC38
Summary ?
| GeneID | 55020 |
| Symbol | TTC38 |
| Synonyms | LL22NC03-5H6.5 |
| Description | tetratricopeptide repeat domain 38 |
| Reference | HGNC:HGNC:26082|Ensembl:ENSG00000075234|HPRD:07943|Vega:OTTHUMG00000150494 |
| Gene type | protein-coding |
| Map location | 22q13 |
| Pascal p-value | 0.817 |
| Sherlock p-value | 0.271 |
| Fetal beta | -0.169 |
| DMG | 2 (# studies) |
| eGene | Anterior cingulate cortex BA24 Caudate basal ganglia Cortex Frontal Cortex BA9 Hippocampus Putamen basal ganglia Meta |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| DMG:Jaffe_2016 | Genome-wide DNA methylation analysis | This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. | 2 |
| 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). | 2 |
Section I. Genetics and epigenetics annotation
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg03036452 | 22 | 46663545 | TTC38 | 2.446E-4 | -0.539 | 0.037 | DMG:Wockner_2014 |
| cg07387570 | 22 | 46663686 | TTC38 | 2.04E-8 | -0.013 | 7.05E-6 | DMG:Jaffe_2016 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs12168702 | 22 | 46659925 | TTC38 | ENSG00000075234.12 | 1.297E-6 | 0.02 | -3933 | gtex_brain_ba24 |
| rs56081982 | 22 | 46660311 | TTC38 | ENSG00000075234.12 | 1.279E-6 | 0.02 | -3547 | gtex_brain_ba24 |
| rs56026857 | 22 | 46660321 | TTC38 | ENSG00000075234.12 | 1.279E-6 | 0.02 | -3537 | gtex_brain_ba24 |
| rs60319170 | 22 | 46660342 | TTC38 | ENSG00000075234.12 | 1.279E-6 | 0.02 | -3516 | gtex_brain_ba24 |
| rs56099920 | 22 | 46660416 | TTC38 | ENSG00000075234.12 | 1.274E-6 | 0.02 | -3442 | gtex_brain_ba24 |
| rs140438140 | 22 | 46660668 | TTC38 | ENSG00000075234.12 | 1.265E-6 | 0.02 | -3190 | gtex_brain_ba24 |
| rs7290386 | 22 | 46661553 | TTC38 | ENSG00000075234.12 | 1.231E-6 | 0.02 | -2305 | gtex_brain_ba24 |
| rs7288256 | 22 | 46661859 | TTC38 | ENSG00000075234.12 | 1.218E-6 | 0.02 | -1999 | gtex_brain_ba24 |
| rs60982126 | 22 | 46662092 | TTC38 | ENSG00000075234.12 | 1.21E-6 | 0.02 | -1766 | gtex_brain_ba24 |
| rs111908398 | 22 | 46662151 | TTC38 | ENSG00000075234.12 | 1.21E-6 | 0.02 | -1707 | gtex_brain_ba24 |
| rs60351202 | 22 | 46662239 | TTC38 | ENSG00000075234.12 | 1.206E-6 | 0.02 | -1619 | gtex_brain_ba24 |
| rs9627349 | 22 | 46662527 | TTC38 | ENSG00000075234.12 | 1.15E-6 | 0.02 | -1331 | gtex_brain_ba24 |
| rs9627351 | 22 | 46663094 | TTC38 | ENSG00000075234.12 | 1.185E-6 | 0.02 | -764 | gtex_brain_ba24 |
| rs12168162 | 22 | 46664855 | TTC38 | ENSG00000075234.12 | 1.185E-6 | 0.02 | 997 | gtex_brain_ba24 |
| rs6008434 | 22 | 46665670 | TTC38 | ENSG00000075234.12 | 2.426E-7 | 0.02 | 1812 | gtex_brain_ba24 |
| rs9627363 | 22 | 46666161 | TTC38 | ENSG00000075234.12 | 2.666E-7 | 0.02 | 2303 | gtex_brain_ba24 |
| rs6008437 | 22 | 46667037 | TTC38 | ENSG00000075234.12 | 2.426E-7 | 0.02 | 3179 | gtex_brain_ba24 |
| rs13433672 | 22 | 46667653 | TTC38 | ENSG00000075234.12 | 2.421E-7 | 0.02 | 3795 | gtex_brain_ba24 |
| rs73177058 | 22 | 46668079 | TTC38 | ENSG00000075234.12 | 2.666E-7 | 0.02 | 4221 | gtex_brain_ba24 |
| rs73177060 | 22 | 46668352 | TTC38 | ENSG00000075234.12 | 2.666E-7 | 0.02 | 4494 | gtex_brain_ba24 |
| rs6008443 | 22 | 46668692 | TTC38 | ENSG00000075234.12 | 2.666E-7 | 0.02 | 4834 | gtex_brain_ba24 |
| rs6008444 | 22 | 46668726 | TTC38 | ENSG00000075234.12 | 2.666E-7 | 0.02 | 4868 | gtex_brain_ba24 |
| rs58993485 | 22 | 46673400 | TTC38 | ENSG00000075234.12 | 2.371E-7 | 0.02 | 9542 | gtex_brain_ba24 |
| rs6007765 | 22 | 46673556 | TTC38 | ENSG00000075234.12 | 2.213E-7 | 0.02 | 9698 | gtex_brain_ba24 |
| rs6007766 | 22 | 46673771 | TTC38 | ENSG00000075234.12 | 2.18E-7 | 0.02 | 9913 | gtex_brain_ba24 |
| rs73177051 | 22 | 46647388 | TTC38 | ENSG00000075234.12 | 3.426E-7 | 0 | -16470 | gtex_brain_putamen_basal |
| rs7293071 | 22 | 46659143 | TTC38 | ENSG00000075234.12 | 6.186E-7 | 0 | -4715 | gtex_brain_putamen_basal |
| rs7290021 | 22 | 46659320 | TTC38 | ENSG00000075234.12 | 1.871E-7 | 0 | -4538 | gtex_brain_putamen_basal |
| rs6519995 | 22 | 46659365 | TTC38 | ENSG00000075234.12 | 1.505E-7 | 0 | -4493 | gtex_brain_putamen_basal |
| rs8137157 | 22 | 46659580 | TTC38 | ENSG00000075234.12 | 2.163E-7 | 0 | -4278 | gtex_brain_putamen_basal |
| . | 22 | 46659697 | TTC38 | ENSG00000075234.12 | 2.109E-7 | 0 | -4161 | gtex_brain_putamen_basal |
| rs12168702 | 22 | 46659925 | TTC38 | ENSG00000075234.12 | 1.698E-7 | 0 | -3933 | gtex_brain_putamen_basal |
| rs56081982 | 22 | 46660311 | TTC38 | ENSG00000075234.12 | 1.703E-7 | 0 | -3547 | gtex_brain_putamen_basal |
| rs56026857 | 22 | 46660321 | TTC38 | ENSG00000075234.12 | 1.703E-7 | 0 | -3537 | gtex_brain_putamen_basal |
| rs60319170 | 22 | 46660342 | TTC38 | ENSG00000075234.12 | 1.704E-7 | 0 | -3516 | gtex_brain_putamen_basal |
| rs56099920 | 22 | 46660416 | TTC38 | ENSG00000075234.12 | 1.709E-7 | 0 | -3442 | gtex_brain_putamen_basal |
| rs140438140 | 22 | 46660668 | TTC38 | ENSG00000075234.12 | 1.73E-7 | 0 | -3190 | gtex_brain_putamen_basal |
| rs7290386 | 22 | 46661553 | TTC38 | ENSG00000075234.12 | 1.896E-7 | 0 | -2305 | gtex_brain_putamen_basal |
| rs7288256 | 22 | 46661859 | TTC38 | ENSG00000075234.12 | 1.991E-7 | 0 | -1999 | gtex_brain_putamen_basal |
| rs60982126 | 22 | 46662092 | TTC38 | ENSG00000075234.12 | 1.448E-7 | 0 | -1766 | gtex_brain_putamen_basal |
| rs111908398 | 22 | 46662151 | TTC38 | ENSG00000075234.12 | 2.103E-7 | 0 | -1707 | gtex_brain_putamen_basal |
| rs60351202 | 22 | 46662239 | TTC38 | ENSG00000075234.12 | 2.142E-7 | 0 | -1619 | gtex_brain_putamen_basal |
| rs9627349 | 22 | 46662527 | TTC38 | ENSG00000075234.12 | 2.282E-7 | 0 | -1331 | gtex_brain_putamen_basal |
| rs9627351 | 22 | 46663094 | TTC38 | ENSG00000075234.12 | 2.421E-7 | 0 | -764 | gtex_brain_putamen_basal |
| rs9627352 | 22 | 46663287 | TTC38 | ENSG00000075234.12 | 1.81E-7 | 0 | -571 | gtex_brain_putamen_basal |
| rs9627353 | 22 | 46663322 | TTC38 | ENSG00000075234.12 | 1.746E-7 | 0 | -536 | gtex_brain_putamen_basal |
| rs9627359 | 22 | 46664431 | TTC38 | ENSG00000075234.12 | 2.847E-8 | 0 | 573 | gtex_brain_putamen_basal |
| rs9627360 | 22 | 46664638 | TTC38 | ENSG00000075234.12 | 2.847E-8 | 0 | 780 | gtex_brain_putamen_basal |
| rs12168162 | 22 | 46664855 | TTC38 | ENSG00000075234.12 | 3.896E-8 | 0 | 997 | gtex_brain_putamen_basal |
| rs6008434 | 22 | 46665670 | TTC38 | ENSG00000075234.12 | 3.104E-9 | 0 | 1812 | gtex_brain_putamen_basal |
| rs9627363 | 22 | 46666161 | TTC38 | ENSG00000075234.12 | 6.839E-9 | 0 | 2303 | gtex_brain_putamen_basal |
| rs6008437 | 22 | 46667037 | TTC38 | ENSG00000075234.12 | 2.368E-9 | 0 | 3179 | gtex_brain_putamen_basal |
| rs13433672 | 22 | 46667653 | TTC38 | ENSG00000075234.12 | 2.366E-9 | 0 | 3795 | gtex_brain_putamen_basal |
| rs73177058 | 22 | 46668079 | TTC38 | ENSG00000075234.12 | 6.839E-9 | 0 | 4221 | gtex_brain_putamen_basal |
| rs73177060 | 22 | 46668352 | TTC38 | ENSG00000075234.12 | 6.219E-9 | 0 | 4494 | gtex_brain_putamen_basal |
| rs6008443 | 22 | 46668692 | TTC38 | ENSG00000075234.12 | 6.839E-9 | 0 | 4834 | gtex_brain_putamen_basal |
| rs6008444 | 22 | 46668726 | TTC38 | ENSG00000075234.12 | 6.839E-9 | 0 | 4868 | gtex_brain_putamen_basal |
| rs200901934 | 22 | 46672668 | TTC38 | ENSG00000075234.12 | 2.729E-7 | 0 | 8810 | gtex_brain_putamen_basal |
| rs199523173 | 22 | 46672927 | TTC38 | ENSG00000075234.12 | 1.129E-7 | 0 | 9069 | gtex_brain_putamen_basal |
| rs58993485 | 22 | 46673400 | TTC38 | ENSG00000075234.12 | 4.685E-9 | 0 | 9542 | gtex_brain_putamen_basal |
| rs6007765 | 22 | 46673556 | TTC38 | ENSG00000075234.12 | 4.698E-9 | 0 | 9698 | gtex_brain_putamen_basal |
| rs6007766 | 22 | 46673771 | TTC38 | ENSG00000075234.12 | 4.537E-9 | 0 | 9913 | gtex_brain_putamen_basal |
| rs6008468 | 22 | 46674212 | TTC38 | ENSG00000075234.12 | 1.993E-8 | 0 | 10354 | gtex_brain_putamen_basal |
| rs6008495 | 22 | 46677904 | TTC38 | ENSG00000075234.12 | 4.982E-10 | 0 | 14046 | gtex_brain_putamen_basal |
| rs11090858 | 22 | 46677997 | TTC38 | ENSG00000075234.12 | 5.062E-10 | 0 | 14139 | gtex_brain_putamen_basal |
| rs6008497 | 22 | 46678666 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 14808 | gtex_brain_putamen_basal |
| rs7284287 | 22 | 46679657 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 15799 | gtex_brain_putamen_basal |
| rs199614755 | 22 | 46679848 | TTC38 | ENSG00000075234.12 | 3.213E-9 | 0 | 15990 | gtex_brain_putamen_basal |
| rs200520977 | 22 | 46679849 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 15991 | gtex_brain_putamen_basal |
| rs6008506 | 22 | 46680021 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 16163 | gtex_brain_putamen_basal |
| rs6007794 | 22 | 46685017 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 21159 | gtex_brain_putamen_basal |
| rs6008534 | 22 | 46685249 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 21391 | gtex_brain_putamen_basal |
| rs66702225 | 22 | 46686480 | TTC38 | ENSG00000075234.12 | 1.642E-7 | 0 | 22622 | gtex_brain_putamen_basal |
| rs73886792 | 22 | 46687220 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 23362 | gtex_brain_putamen_basal |
| rs73886794 | 22 | 46687268 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 23410 | gtex_brain_putamen_basal |
| rs147696491 | 22 | 46687758 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 23900 | gtex_brain_putamen_basal |
| rs376498297 | 22 | 46687859 | TTC38 | ENSG00000075234.12 | 1.461E-9 | 0 | 24001 | gtex_brain_putamen_basal |
| rs6008552 | 22 | 46688208 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 24350 | gtex_brain_putamen_basal |
| rs6008553 | 22 | 46688321 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 24463 | gtex_brain_putamen_basal |
| rs57866552 | 22 | 46689229 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 25371 | gtex_brain_putamen_basal |
| rs58980421 | 22 | 46689347 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 25489 | gtex_brain_putamen_basal |
| rs192865370 | 22 | 46690554 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 26696 | gtex_brain_putamen_basal |
| rs55832024 | 22 | 46690714 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 26856 | gtex_brain_putamen_basal |
| rs58704441 | 22 | 46690861 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 27003 | gtex_brain_putamen_basal |
| rs8140182 | 22 | 46691400 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 27542 | gtex_brain_putamen_basal |
| rs7290732 | 22 | 46691903 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 28045 | gtex_brain_putamen_basal |
| rs7286885 | 22 | 46692182 | TTC38 | ENSG00000075234.12 | 9.525E-8 | 0 | 28324 | gtex_brain_putamen_basal |
| rs7285629 | 22 | 46692203 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 28345 | gtex_brain_putamen_basal |
| rs138494076 | 22 | 46692397 | TTC38 | ENSG00000075234.12 | 6.911E-9 | 0 | 28539 | gtex_brain_putamen_basal |
| rs58434356 | 22 | 46692905 | TTC38 | ENSG00000075234.12 | 8.522E-9 | 0 | 29047 | gtex_brain_putamen_basal |
| rs60032274 | 22 | 46693060 | TTC38 | ENSG00000075234.12 | 5.144E-10 | 0 | 29202 | gtex_brain_putamen_basal |
| rs9627425 | 22 | 46763821 | TTC38 | ENSG00000075234.12 | 1.046E-6 | 0 | 99963 | gtex_brain_putamen_basal |
Section II. Transcriptome annotation
General gene expression (GTEx)
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.
No co-expressed genes in brain regions
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| PARENT MTOR SIGNALING UP | 567 | 375 | All SZGR 2.0 genes in this pathway |
| DODD NASOPHARYNGEAL CARCINOMA UP | 1821 | 933 | All SZGR 2.0 genes in this pathway |
| LINDGREN BLADDER CANCER CLUSTER 3 DN | 229 | 142 | All SZGR 2.0 genes in this pathway |
| NUYTTEN NIPP1 TARGETS DN | 848 | 527 | All SZGR 2.0 genes in this pathway |
| BENPORATH CYCLING GENES | 648 | 385 | All SZGR 2.0 genes in this pathway |
| CHANG IMMORTALIZED BY HPV31 UP | 84 | 55 | All SZGR 2.0 genes in this pathway |
| SHEDDEN LUNG CANCER POOR SURVIVAL A6 | 456 | 285 | All SZGR 2.0 genes in this pathway |
| HAN SATB1 TARGETS DN | 442 | 275 | All SZGR 2.0 genes in this pathway |
| MEISSNER NPC HCP WITH H3 UNMETHYLATED | 536 | 296 | All SZGR 2.0 genes in this pathway |
| BOYAULT LIVER CANCER SUBCLASS G3 DN | 51 | 32 | All SZGR 2.0 genes in this pathway |
| WHITFIELD CELL CYCLE G2 | 182 | 102 | All SZGR 2.0 genes in this pathway |
| RATTENBACHER BOUND BY CELF1 | 467 | 251 | All SZGR 2.0 genes in this pathway |
| ZWANG DOWN BY 2ND EGF PULSE | 293 | 119 | All SZGR 2.0 genes in this pathway |