Gene Page: SLIT2

Summary ?
GeneID9353
SymbolSLIT2
SynonymsSLIL3|Slit-2
Descriptionslit guidance ligand 2
ReferenceMIM:603746|HGNC:HGNC:11086|Ensembl:ENSG00000145147|HPRD:04776|Vega:OTTHUMG00000128551
Gene typeprotein-coding
Map location4p15.2
Pascal p-value0.081
Sherlock p-value0.144
TADA p-value0.022
Fetal beta-0.905
eGeneMyers' cis & trans
SupportAscano FMRP targets
Potential synaptic genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
DNM:Gulsuner_2013Whole Exome Sequencing analysis155 DNMs identified by exome sequencing of quads or trios of schizophrenia individuals and their parents.
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 7 

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
SLIT2chr420530671ACNM_004787p.521N>TmissenseSchizophreniaDNM:Gulsuner_2013

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs17014160chr1206855799SLIT293530.04trans

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
GenePearson's Correlation Spearman's Correlation
TPX20.990.88
BUB1B0.990.83
BUB10.990.80
MELK0.980.81
PRC10.980.81
KIF150.980.80
CDCA20.980.77
EXO10.980.79
CEP550.980.80
MCM100.980.80
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
HLA-F-0.38-0.72
FBXO2-0.38-0.60
PTH1R-0.38-0.65
C5orf53-0.38-0.65
SLC9A3R2-0.38-0.41
AF347015.27-0.37-0.80
AIFM3-0.37-0.68
AF347015.31-0.37-0.80
TNFSF12-0.37-0.61
ALDOC-0.37-0.65

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0005102receptor bindingTASNeurotransmitter (GO term level: 4)10102268 
GO:0005509calcium ion bindingIEA-
GO:0004963follicle-stimulating hormone receptor activityIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0031290retinal ganglion cell axon guidanceIEAaxon, Brain (GO term level: 14)-
GO:0008045motor axon guidanceTASneuron, axon (GO term level: 14)10102268 
GO:0008038neuron recognitionTASneuron (GO term level: 4)10432110 
GO:0008347glial cell migrationIMPneuron, Glial (GO term level: 8)10102268 
GO:0050772positive regulation of axonogenesisTASaxon, neurogenesis (GO term level: 14)10197527 
GO:0007399nervous system developmentTASneurite (GO term level: 5)9813312 
GO:0001657ureteric bud developmentIMP15130495 
GO:0007186G-protein coupled receptor protein signaling pathwayIEA-
GO:0007509mesoderm migrationIMP10102268 
GO:0007608sensory perception of smellTAS10102269 
GO:0006935chemotaxisIEA-
GO:0007275multicellular organismal developmentIEA-
GO:0030154cell differentiationIEA-
GO:0050929induction of negative chemotaxisIDA10197527 
GO:0050929induction of negative chemotaxisIMP10102268 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005576extracellular regionIDA10102268 
GO:0005615extracellular spaceIEA-
GO:0016021integral to membraneIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG AXON GUIDANCE 129103All SZGR 2.0 genes in this pathway
PID GLYPICAN 1PATHWAY 2720All SZGR 2.0 genes in this pathway
REACTOME DEVELOPMENTAL BIOLOGY 396292All SZGR 2.0 genes in this pathway
REACTOME AXON GUIDANCE 251188All SZGR 2.0 genes in this pathway
REACTOME ACTIVATION OF RAC 1411All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY ROBO RECEPTOR 3026All SZGR 2.0 genes in this pathway
REACTOME NETRIN1 SIGNALING 4130All SZGR 2.0 genes in this pathway
CHEMNITZ RESPONSE TO PROSTAGLANDIN E2 DN 391222All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN 460312All SZGR 2.0 genes in this pathway
GAL LEUKEMIC STEM CELL UP 13378All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER ADVANCED VS EARLY UP 175120All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY DN 367220All SZGR 2.0 genes in this pathway
LEE NEURAL CREST STEM CELL DN 11879All SZGR 2.0 genes in this pathway
WAMUNYOKOLI OVARIAN CANCER LMP DN 199124All SZGR 2.0 genes in this pathway
WAMUNYOKOLI OVARIAN CANCER GRADES 1 2 DN 6743All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN 805505All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC DN 537339All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA DN 7752All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
BEGUM TARGETS OF PAX3 FOXO1 FUSION UP 6045All SZGR 2.0 genes in this pathway
PEREZ TP63 TARGETS 355243All SZGR 2.0 genes in this pathway
PEREZ TP53 AND TP63 TARGETS 205145All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 XPCS DN 8871All SZGR 2.0 genes in this pathway
SEITZ NEOPLASTIC TRANSFORMATION BY 8P DELETION UP 7347All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855609All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390236All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN 428306All SZGR 2.0 genes in this pathway
SCHAEFFER SOX9 TARGETS IN PROSTATE DEVELOPMENT DN 4533All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038678All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062725All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118744All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652441All SZGR 2.0 genes in this pathway
FRASOR RESPONSE TO ESTRADIOL DN 8252All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237837All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 16HR DN 8662All SZGR 2.0 genes in this pathway
DELASERNA MYOD TARGETS DN 5742All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL 254164All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 UP 428266All SZGR 2.0 genes in this pathway
GENTILE UV LOW DOSE DN 6746All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP 393244All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP 430288All SZGR 2.0 genes in this pathway
AMBROSINI FLAVOPIRIDOL TREATMENT TP53 10963All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260174All SZGR 2.0 genes in this pathway
WOO LIVER CANCER RECURRENCE UP 10575All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 HCP WITH H3K27ME3 435318All SZGR 2.0 genes in this pathway
CHANDRAN METASTASIS DN 306191All SZGR 2.0 genes in this pathway
MIKKELSEN NPC HCP WITH H3K27ME3 341243All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS GROWING 243155All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 24HR DN 505328All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 1 DN 6339All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP D 280158All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137655All SZGR 2.0 genes in this pathway
PLASARI NFIC TARGETS BASAL DN 1813All SZGR 2.0 genes in this pathway
WANG MLL TARGETS 289188All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489314All SZGR 2.0 genes in this pathway
NABA ECM GLYCOPROTEINS 19699All SZGR 2.0 genes in this pathway
NABA CORE MATRISOME 275148All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028559All SZGR 2.0 genes in this pathway