Summary ?
GeneID8216
SymbolLZTR1
SynonymsBTBD29|LZTR-1|NS10|SWNTS2
Descriptionleucine-zipper-like transcription regulator 1
ReferenceMIM:600574|HGNC:HGNC:6742|Ensembl:ENSG00000099949|HPRD:08992|Vega:OTTHUMG00000150878
Gene typeprotein-coding
Map location22q11.21|22q11.1-q11.2
Pascal p-value0.388
Sherlock p-value0.722
Fetal beta0.551
DMG2 (# studies)
eGeneCerebellum
Hippocampus

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CNV:YESCopy number variation studiesManual curation
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:Nishioka_2013Genome-wide DNA methylation analysisThe authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls. 2
GSMA_IGenome scan meta-analysisPsr: 0.031 

Section I. Genetics and epigenetics annotation

@DNM table

GeneChromosomePositionRefAltTranscriptAA changeMutation typeSiftCG46TraitStudy
LZTR1chr2221351589CTNM_006767.silentSchizophreniaDNM:Fromer_2014

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg036973162221336741LZTR1-0.0280.66DMG:Nishioka_2013
cg033524092221336370LZTR18.66E-10-0.0131.09E-6DMG:Jaffe_2016


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
TMEM1010.780.77
ALG30.760.76
SLC25A390.760.76
GPAA10.740.76
TMEM161A0.730.68
VKORC10.720.73
ILVBL0.720.75
FAM69B0.720.68
YIPF20.710.72
CYHR10.710.69
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MT-ATP8-0.44-0.43
AF347015.21-0.41-0.40
AF347015.8-0.41-0.36
AF347015.27-0.40-0.38
AF347015.18-0.40-0.47
AF347015.26-0.39-0.38
AF347015.15-0.38-0.33
MT-CYB-0.38-0.34
AF347015.33-0.38-0.35
SEC62-0.37-0.43

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0003700transcription factor activityTAS7633402 
GO:0005515protein bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0009653anatomical structure morphogenesisTAS7633402 

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
CHARAFE BREAST CANCER LUMINAL VS BASAL UP 380215All SZGR 2.0 genes in this pathway
WIKMAN ASBESTOS LUNG CANCER DN 2813All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP 1142669All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP 612367All SZGR 2.0 genes in this pathway
TSAI RESPONSE TO IONIZING RADIATION 149101All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA HIF1A UP 7749All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 AND HIF1A DN 10371All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS 775494All SZGR 2.0 genes in this pathway
WONG IFNA2 RESISTANCE DN 3420All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All SZGR 2.0 genes in this pathway
LEE METASTASIS AND ALTERNATIVE SPLICING UP 7451All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA DN 10063All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC 1103714All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP 682440All SZGR 2.0 genes in this pathway
FOSTER KDM1A TARGETS DN 211119All SZGR 2.0 genes in this pathway