Gene Page: SOX4

Summary ?
GeneID6659
SymbolSOX4
SynonymsEVI16
DescriptionSRY-box 4
ReferenceMIM:184430|HGNC:HGNC:11200|Ensembl:ENSG00000124766|HPRD:01695|Vega:OTTHUMG00000016101
Gene typeprotein-coding
Map location6p22.3
Pascal p-value0.466
Sherlock p-value0.27
Fetal beta4.962
DMG2 (# studies)
eGeneMyers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis 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_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 2
GSMA_IGenome scan meta-analysisPsr: 0.033 

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg08718230621596358SOX44.092E-4-0.2360.044DMG:Wockner_2014
cg08950757621593963SOX41.06E-8-0.0274.54E-6DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs7837675chr836615251SOX466590.03trans
rs1981322chr836630228SOX466590.03trans

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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003700transcription factor activityTAS8268656 
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006355regulation of transcription, DNA-dependentIEA-
GO:0006350transcriptionIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005634nucleusIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL UP 285181All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER UP 9657All SZGR 2.0 genes in this pathway
LIU SOX4 TARGETS UP 13794All SZGR 2.0 genes in this pathway
FOURNIER ACINAR DEVELOPMENT LATE UP 116All SZGR 2.0 genes in this pathway
SENGUPTA NASOPHARYNGEAL CARCINOMA UP 294178All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS UP 579346All SZGR 2.0 genes in this pathway
PUIFFE INVASION INHIBITED BY ASCITES DN 14591All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS GREY DN 7444All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 3D UP 182110All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 8D UP 15791All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 10D UP 194122All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 16D UP 175108All SZGR 2.0 genes in this pathway
AKL HTLV1 INFECTION UP 2716All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION SUSTAINED IN GRANULOCYTE UP 159All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION HSC UP 185126All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION GRANULOCYTE UP 5534All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION MONOCYTE UP 204140All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION ERYTHROCYTE UP 157104All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION SUSTAINED IN MONOCYTE UP 2115All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION SUSTAINDED IN ERYTHROCYTE UP 4430All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION DN 329219All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN 1375806All SZGR 2.0 genes in this pathway
HAHTOLA MYCOSIS FUNGOIDES SKIN UP 177113All SZGR 2.0 genes in this pathway
LANDIS BREAST CANCER PROGRESSION UP 4427All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP 443294All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552347All SZGR 2.0 genes in this pathway
VANHARANTA UTERINE FIBROID UP 4526All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP 1142669All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 UP 15093All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 4 5WK UP 271175All SZGR 2.0 genes in this pathway
LUI THYROID CANCER PAX8 PPARG UP 4429All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL DN 186107All SZGR 2.0 genes in this pathway
STREICHER LSM1 TARGETS UP 4434All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA PROGRESSION RISK 7444All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION HBZ 4127All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION HEMGN 3121All SZGR 2.0 genes in this pathway
RASHI RESPONSE TO IONIZING RADIATION 2 12792All SZGR 2.0 genes in this pathway
LI AMPLIFIED IN LUNG CANCER 178108All SZGR 2.0 genes in this pathway
LUI THYROID CANCER CLUSTER 1 5133All SZGR 2.0 genes in this pathway
AIYAR COBRA1 TARGETS DN 2918All SZGR 2.0 genes in this pathway
DACOSTA ERCC3 ALLELE XPCS VS TTD DN 3627All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN 514319All SZGR 2.0 genes in this pathway
FURUKAWA DUSP6 TARGETS PCI35 UP 7432All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM1 229137All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM2 153102All SZGR 2.0 genes in this pathway
TOMLINS PROSTATE CANCER UP 4027All SZGR 2.0 genes in this pathway
NAKAYAMA FRA2 TARGETS 4327All SZGR 2.0 genes in this pathway
LIAO METASTASIS 539324All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514330All SZGR 2.0 genes in this pathway
SCHAEFFER SOX9 TARGETS IN PROSTATE DEVELOPMENT DN 4533All SZGR 2.0 genes in this pathway
BENPORATH ES CORE NINE CORRELATED 10068All SZGR 2.0 genes in this pathway
AMIT SERUM RESPONSE 60 MCF10A 5742All SZGR 2.0 genes in this pathway
SHIN B CELL LYMPHOMA CLUSTER 8 3628All SZGR 2.0 genes in this pathway
MORI MATURE B LYMPHOCYTE DN 7543All SZGR 2.0 genes in this pathway
SHIPP DLBCL CURED VS FATAL UP 3922All SZGR 2.0 genes in this pathway
SWEET KRAS TARGETS UP 8451All SZGR 2.0 genes in this pathway
OKUMURA INFLAMMATORY RESPONSE LPS 183115All SZGR 2.0 genes in this pathway
MANALO HYPOXIA UP 207145All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS UP 12684All SZGR 2.0 genes in this pathway
MATSUDA NATURAL KILLER DIFFERENTIATION 475313All SZGR 2.0 genes in this pathway
BROWN MYELOID CELL DEVELOPMENT DN 12986All SZGR 2.0 genes in this pathway
LENAOUR DENDRITIC CELL MATURATION UP 11484All SZGR 2.0 genes in this pathway
KUMAR TARGETS OF MLL AF9 FUSION 405264All SZGR 2.0 genes in this pathway
GENTILE UV LOW DOSE UP 2719All SZGR 2.0 genes in this pathway
RHODES CANCER META SIGNATURE 6447All SZGR 2.0 genes in this pathway
NIELSEN GIST VS SYNOVIAL SARCOMA UP 1912All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV SCC DN 12386All SZGR 2.0 genes in this pathway
GERHOLD ADIPOGENESIS DN 6444All SZGR 2.0 genes in this pathway
HAN JNK SINGALING UP 3521All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL AND PROGENITOR 681420All SZGR 2.0 genes in this pathway
ZAMORA NOS2 TARGETS DN 9671All SZGR 2.0 genes in this pathway
WELCSH BRCA1 TARGETS DN 14192All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN 911527All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011592All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P3 160103All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS 212121All SZGR 2.0 genes in this pathway
SANSOM APC MYC TARGETS 217138All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS REQUIRE MYC 210123All SZGR 2.0 genes in this pathway
SANSOM WNT PATHWAY REQUIRE MYC 5843All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS UP 317208All SZGR 2.0 genes in this pathway
HELLER HDAC TARGETS SILENCED BY METHYLATION UP 461298All SZGR 2.0 genes in this pathway
CLAUS PGR POSITIVE MENINGIOMA DN 1210All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS UP 673430All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP 602364All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601369All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE DN 258160All SZGR 2.0 genes in this pathway
MASSARWEH RESPONSE TO ESTRADIOL 6147All SZGR 2.0 genes in this pathway
WALLACE PROSTATE CANCER UP 2014All SZGR 2.0 genes in this pathway
WHITEFORD PEDIATRIC CANCER MARKERS 11663All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP 871505All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL CULTURED VS FRESH UP 425298All SZGR 2.0 genes in this pathway
PODAR RESPONSE TO ADAPHOSTIN UP 14798All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN 342220All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D UP 13995All SZGR 2.0 genes in this pathway
PARK APL PATHOGENESIS UP 1411All SZGR 2.0 genes in this pathway
RUIZ TNC TARGETS UP 153107All SZGR 2.0 genes in this pathway
MUELLER COMMON TARGETS OF AML FUSIONS UP 1410All SZGR 2.0 genes in this pathway
LEE RECENT THYMIC EMIGRANT 227128All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP 395249All SZGR 2.0 genes in this pathway
TAVAZOIE METASTASIS 10868All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS PROLIFERATION UP 178108All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE UP 10968All SZGR 2.0 genes in this pathway
ASGHARZADEH NEUROBLASTOMA POOR SURVIVAL DN 4630All SZGR 2.0 genes in this pathway
KOBAYASHI EGFR SIGNALING 24HR UP 10165All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA UP 207143All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721492All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS UP 221135All SZGR 2.0 genes in this pathway
GERHOLD RESPONSE TO TZD DN 1311All SZGR 2.0 genes in this pathway
DASU IL6 SIGNALING UP 5944All SZGR 2.0 genes in this pathway
LI INDUCED T TO NATURAL KILLER DN 11683All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE DN 841431All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA PRONEURAL 177132All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS LOW SERUM 10051All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 24HR DN 505328All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 19721213All SZGR 2.0 genes in this pathway
MIYAGAWA TARGETS OF EWSR1 ETS FUSIONS UP 259159All SZGR 2.0 genes in this pathway
PASINI SUZ12 TARGETS DN 315215All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS DN 553343All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION TOP20 DN 1812All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION DN 321200All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 NOT SATB1 UP 344215All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG BOUND 8D 658397All SZGR 2.0 genes in this pathway
LOPEZ TRANSLATION VIA FN1 SIGNALING 3521All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE NOT VIA P38 337236All SZGR 2.0 genes in this pathway
PECE MAMMARY STEM CELL UP 14675All SZGR 2.0 genes in this pathway
ZWANG EGF INTERVAL DN 214124All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-129-5p23542360m8hsa-miR-129brainCUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5pCUUUUUGCGGUCUGGGCUUGCU
hsa-miR-129brainCUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5pCUUUUUGCGGUCUGGGCUUGCU
hsa-miR-129brainCUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5pCUUUUUGCGGUCUGGGCUUGCU
hsa-miR-129brainCUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5pCUUUUUGCGGUCUGGGCUUGCU
miR-130/30120972103m8hsa-miR-130abrainCAGUGCAAUGUUAAAAGGGCAU
hsa-miR-301CAGUGCAAUAGUAUUGUCAAAGC
hsa-miR-130bbrainCAGUGCAAUGAUGAAAGGGCAU
hsa-miR-454-3pUAGUGCAAUAUUGCUUAUAGGGUUU
miR-132/21211481154m8hsa-miR-212SZUAACAGUCUCCAGUCACGGCC
hsa-miR-132brainUAACAGUCUACAGCCAUGGUCG
miR-133131413201Ahsa-miR-133aUUGGUCCCCUUCAACCAGCUGU
hsa-miR-133bUUGGUCCCCUUCAACCAGCUA
miR-13812331239m8hsa-miR-138brainAGCUGGUGUUGUGAAUC
miR-140208320901A,m8hsa-miR-140brainAGUGGUUUUACCCUAUGGUAG
hsa-miR-140brainAGUGGUUUUACCCUAUGGUAG
miR-17-5p/20/93.mr/106/519.d20992105m8hsa-miR-17-5pCAAAGUGCUUACAGUGCAGGUAGU
hsa-miR-20abrainUAAAGUGCUUAUAGUGCAGGUAG
hsa-miR-106aAAAAGUGCUUACAGUGCAGGUAGC
hsa-miR-106bSZUAAAGUGCUGACAGUGCAGAU
hsa-miR-20bSZCAAAGUGCUCAUAGUGCAGGUAG
hsa-miR-519dCAAAGUGCCUCCCUUUAGAGUGU
miR-18820582064m8hsa-miR-188CAUCCCUUGCAUGGUGGAGGGU
miR-1920962102m8hsa-miR-19aUGUGCAAAUCUAUGCAAAACUGA
hsa-miR-19bUGUGCAAAUCCAUGCAAAACUGA
miR-191242524321A,m8hsa-miR-191brainCAACGGAAUCCCAAAAGCAGCU
miR-199213521411Ahsa-miR-199aCCCAGUGUUCAGACUACCUGUUC
hsa-miR-199bCCCAGUGUUUAGACUAUCUGUUC
miR-204/21120572063m8hsa-miR-204brainUUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211UUCCCUUUGUCAUCCUUCGCCU
miR-208249725031Ahsa-miR-208AUAAGACGAGCAAAAAGCUUGU
miR-25/32/92/363/367247224791A,m8hsa-miR-25brainCAUUGCACUUGUCUCGGUCUGA
hsa-miR-32UAUUGCACAUUACUAAGUUGC
hsa-miR-92UAUUGCACUUGUCCCGGCCUG
hsa-miR-367AAUUGCACUUUAGCAAUGGUGA
hsa-miR-92bSZUAUUGCACUCGUCCCGGCCUC
miR-299-5p208120881A,m8hsa-miR-299-5pUGGUUUACCGUCCCACAUACAU
hsa-miR-299-5pUGGUUUACCGUCCCACAUACAU
miR-30-5p186418711A,m8hsa-miR-30a-5pUGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrainUGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZUGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZUGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5pUGUAAACAUCCUUGACUGGA
miR-320207020761Ahsa-miR-320AAAAGCUGGGUUGAGAGGGCGAA
miR-329236523711Ahsa-miR-329brainAACACACCUGGUUAACCUCUUU
miR-338128912951Ahsa-miR-338brainUCCAGCAUCAGUGAUUUUGUUGA
miR-34/44925752581m8hsa-miR-34abrainUGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34cAGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449bAGGCAGUGUAUUGUUAGCUGGC
miR-34b25762582m8hsa-miR-34bUAGGCAGUGUCAUUAGCUGAUUG
miR-369-3p234223491A,m8hsa-miR-369-3pAAUAAUACAUGGUUGAUCUUU
miR-374234323501A,m8hsa-miR-374UUAUAAUACAACCUGAUAAGUG
miR-38121942200m8hsa-miR-381UAUACAAGGGCAAGCUCUCUGU
miR-411248224881Ahsa-miR-411AACACGGUCCACUAACCCUCAGU
miR-450235423601Ahsa-miR-450UUUUUGCGAUGUGUUCCUAAUA
hsa-miR-450UUUUUGCGAUGUGUUCCUAAUA
hsa-miR-450UUUUUGCGAUGUGUUCCUAAUA
miR-499249725031Ahsa-miR-499UUAAGACUUGCAGUGAUGUUUAA
miR-539172617321Ahsa-miR-539GGAGAAAUUAUCCUUGGUGUGU