Summary ?
GeneID80059
SymbolLRRTM4
Synonyms-
Descriptionleucine rich repeat transmembrane neuronal 4
ReferenceMIM:610870|HGNC:HGNC:19411|Ensembl:ENSG00000176204|HPRD:11288|Vega:OTTHUMG00000152842
Gene typeprotein-coding
Map location2p12
Pascal p-value0.036
Fetal beta-0.403
eGeneMyers' cis & trans
SupportG2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS
G2Cdb.humanPSD
G2Cdb.humanPSP

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs843350chr3183946273LRRTM4800590.12trans

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
LMTK20.880.88
FBXL180.870.89
PIP5K1C0.860.88
PHLPP20.860.87
SH2B30.850.86
SIK20.850.85
TGOLN20.850.87
C17orf510.850.86
ABR0.850.88
FBXO410.840.82
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
DBI-0.49-0.57
AL139819.3-0.45-0.53
AF347015.21-0.45-0.46
GNG11-0.43-0.49
RAB13-0.42-0.49
C1orf54-0.42-0.52
NSBP1-0.41-0.46
AP002478.3-0.41-0.46
RHOC-0.41-0.47
AF347015.18-0.40-0.39

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
MOHANKUMAR TLX1 TARGETS UP 414287All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL 254164All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857456All SZGR 2.0 genes in this pathway
VERHAAK GLIOBLASTOMA PRONEURAL 177132All SZGR 2.0 genes in this pathway