Gene Page: SND1

Summary ?
GeneID27044
SymbolSND1
SynonymsTDRD11|p100
Descriptionstaphylococcal nuclease and tudor domain containing 1
ReferenceMIM:602181|HGNC:HGNC:30646|Ensembl:ENSG00000197157|HPRD:03714|Vega:OTTHUMG00000157560
Gene typeprotein-coding
Map location7q31.3
Pascal p-value8.566E-4
Sherlock p-value0.789
Fetal beta-0.277
DMG2 (# studies)
eGeneCerebellum
Cortex
Putamen basal ganglia
SupportG2Cdb.humanPSD
G2Cdb.humanPSP
CompositeSet
Ascano FMRP targets

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
DNM:Fromer_2014Whole Exome Sequencing analysisThis study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA.

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
SND1chr7127347673AGNM_014390p.337D>GmissenseSchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg201088727127595297SND11.55E-50.5690.015DMG:Wockner_2014
cg059867817127291658SND14.08E-9-0.0192.49E-6DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs356609647127272820SND1ENSG00000197157.63.58193E-60.03-19414gtex_brain_putamen_basal
rs732348737127292004SND1ENSG00000197157.63.30934E-60.03-230gtex_brain_putamen_basal
rs132389247127363060SND1ENSG00000197157.63.30051E-60.0370826gtex_brain_putamen_basal
rs13481037127391852SND1ENSG00000197157.63.30129E-60.0399618gtex_brain_putamen_basal

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 V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
PID CMYB PATHWAY 8461All SZGR 2.0 genes in this pathway
FULCHER INFLAMMATORY RESPONSE LECTIN VS LPS UP 579346All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN 1375806All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE UP 530342All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN 17811082All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA DN 394258All SZGR 2.0 genes in this pathway
TOMLINS PROSTATE CANCER UP 4027All SZGR 2.0 genes in this pathway
INGRAM SHH TARGETS DN 6441All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514330All SZGR 2.0 genes in this pathway
SHEPARD BMYB MORPHOLINO UP 205126All SZGR 2.0 genes in this pathway
MARTINEZ RESPONSE TO TRABECTEDIN 5032All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C6 3927All SZGR 2.0 genes in this pathway
KAAB HEART ATRIUM VS VENTRICLE UP 249170All SZGR 2.0 genes in this pathway
XU GH1 EXOGENOUS TARGETS UP 8550All SZGR 2.0 genes in this pathway
STEARMAN LUNG CANCER EARLY VS LATE DN 6139All SZGR 2.0 genes in this pathway
SARRIO EPITHELIAL MESENCHYMAL TRANSITION DN 154101All SZGR 2.0 genes in this pathway
ACEVEDO NORMAL TISSUE ADJACENT TO LIVER TUMOR DN 354216All SZGR 2.0 genes in this pathway
ACEVEDO METHYLATED IN LIVER CANCER DN 940425All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP 871505All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA DN 10063All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366257All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491316All SZGR 2.0 genes in this pathway
SWEET KRAS ONCOGENIC SIGNATURE 8956All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 14 14386All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B 549316All SZGR 2.0 genes in this pathway