Gene Page: LYST

Summary ?
GeneID1130
SymbolLYST
SynonymsCHS|CHS1
Descriptionlysosomal trafficking regulator
ReferenceMIM:606897|HGNC:HGNC:1968|Ensembl:ENSG00000143669|HPRD:06060|Vega:OTTHUMG00000040527
Gene typeprotein-coding
Map location1q42.1-q42.2
DMG1 (# studies)

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
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). 1

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg253774751236030556LYST2.238E-4-0.1860.036DMG:Wockner_2014


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
RBBP40.870.84
ODC10.870.82
NONO0.860.87
ZNF6490.860.79
RNF1220.860.72
RBMX0.860.83
MSH60.850.85
GNAI30.850.82
PPM1D0.850.80
UNG0.850.70
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
TNFSF12-0.58-0.63
HLA-F-0.58-0.76
PTH1R-0.56-0.68
C5orf53-0.56-0.67
SLC9A3R2-0.55-0.48
SLC16A11-0.55-0.64
TINAGL1-0.55-0.71
LHPP-0.54-0.58
AF347015.27-0.54-0.80
AF347015.31-0.54-0.79

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
ATN1B37 | D12S755E | DRPLA | NODatrophin 1-HPRD,BioGRID11984006 
BRUNOL4BRUNOL-4 | CELF4bruno-like 4, RNA binding protein (Drosophila)Two-hybridBioGRID11984006 
CALM1CALML2 | CAMI | DD132 | PHKDcalmodulin 1 (phosphorylase kinase, delta)-HPRD11984006 
CENPJBM032 | CPAP | LAP | LIP1 | MCPH6 | MGC131581 | MGC131582 | MGC142222 | MGC142224centromere protein JTwo-hybridBioGRID11984006 
CNTROBLIP8 | PP1221centrobin, centrosomal BRCA2 interacting protein-HPRD,BioGRID11984006 
CSNK2BCK2B | CK2N | CSK2B | G5A | MGC138222 | MGC138224casein kinase 2, beta polypeptide-HPRD,BioGRID11984006 
DGCR14DGCR13 | DGS-H | DGS-I | DGSH | DGSI | ES2 | Es2elDiGeorge syndrome critical region gene 14-HPRD,BioGRID11984006 
DNAJC14DNAJ | DRIP78 | HDJ3 | LIP6DnaJ (Hsp40) homolog, subfamily C, member 14-HPRD,BioGRID11984006 
EFSCAS3 | CASS3 | EFS1 | EFS2 | HEFS | SINembryonal Fyn-associated substrateTwo-hybridBioGRID11984006 
ESRRAERR1 | ERRa | ERRalpha | ESRL1 | NR3B1estrogen-related receptor alpha-HPRD,BioGRID11984006 
HGSHRS | ZFYVE8hepatocyte growth factor-regulated tyrosine kinase substrate-HPRD,BioGRID11984006 
HNRNPMDKFZp547H118 | HNRNPM4 | HNRPM | HNRPM4 | HTGR1 | NAGR1heterogeneous nuclear ribonucleoprotein M-HPRD,BioGRID11984006 
KPNB1IMB1 | IPOB | Impnb | MGC2155 | MGC2156 | MGC2157 | NTF97karyopherin (importin) beta 1-HPRD,BioGRID11984006 
MED12CAGH45 | HOPA | KIAA0192 | OPA1 | TNRC11 | TRAP230mediator complex subunit 12-HPRD,BioGRID11984006 
MRPL17L17mt | LIP2 | MRP-L17 | MRP-L26 | RPL17L | RPML26mitochondrial ribosomal protein L17-HPRD,BioGRID11984006 
MRPS31IMOGN38 | MRP-S31 | S31mtmitochondrial ribosomal protein S31Two-hybridBioGRID11984006 
NCDNKIAA0607neurochondrin-HPRD,BioGRID11984006 
PCBP4LIP4 | MCG10poly(rC) binding protein 4Two-hybridBioGRID11984006 
TNNI3CMD2A | CMH7 | MGC116817 | TNNC1 | cTnItroponin I type 3 (cardiac)Two-hybridBioGRID11984006 
VTA1C6orf55 | DRG-1 | DRG1 | FLJ27228 | HSPC228 | LIP5 | My012 | SBP1Vps20-associated 1 homolog (S. cerevisiae)Two-hybridBioGRID11984006 
YWHABGW128 | HS1 | KCIP-1tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide-HPRD,BioGRID11984006 
YWHAQ14-3-3 | 1C5 | HS1tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide-HPRD,BioGRID11984006 
YWHAZKCIP-1 | MGC111427 | MGC126532 | MGC138156tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptideReconstituted ComplexBioGRID11984006 
ZNF521DKFZp564D0764 | EHZF | Evi3 | MGC142182 | MGC142208zinc finger protein 521Two-hybridBioGRID11984006 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
LIU PROSTATE CANCER DN 481290All SZGR 2.0 genes in this pathway
OSMAN BLADDER CANCER UP 404246All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 1 UP 380236All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN 485334All SZGR 2.0 genes in this pathway
VANHARANTA UTERINE FIBROID WITH 7Q DELETION DN 3623All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN 17811082All SZGR 2.0 genes in this pathway
XU HGF TARGETS REPRESSED BY AKT1 DN 9558All SZGR 2.0 genes in this pathway
XU AKT1 TARGETS 6HR 2718All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN 584395All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP 811508All SZGR 2.0 genes in this pathway
BYSTROEM CORRELATED WITH IL5 DN 6447All SZGR 2.0 genes in this pathway
MATSUDA NATURAL KILLER DIFFERENTIATION 475313All SZGR 2.0 genes in this pathway
YAGI AML SURVIVAL 12987All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS LATE PROGENITOR 544307All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN 830547All SZGR 2.0 genes in this pathway
CHANG IMMORTALIZED BY HPV31 DN 6545All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 16911088All 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 P7 9052All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER WITH H3K27ME3 DN 228114All SZGR 2.0 genes in this pathway
BRUECKNER TARGETS OF MIRLET7A3 UP 11169All SZGR 2.0 genes in this pathway
PARK APL PATHOGENESIS DN 5035All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS DN 366257All SZGR 2.0 genes in this pathway
LEE DOUBLE POLAR THYMOCYTE 2717All SZGR 2.0 genes in this pathway
CAIRO LIVER DEVELOPMENT DN 222141All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 4HR DN 254158All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 24HR DN 505328All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682433All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION UP 271165All SZGR 2.0 genes in this pathway
PEDERSEN METASTASIS BY ERBB2 ISOFORM 7 403240All SZGR 2.0 genes in this pathway
PEDERSEN TARGETS OF 611CTF ISOFORM OF ERBB2 7645All SZGR 2.0 genes in this pathway
ZWANG CLASS 1 TRANSIENTLY INDUCED BY EGF 516308All SZGR 2.0 genes in this pathway