Gene Page:PDCD6

Summary?
GeneID 10016
Symbol PDCD6
Synonyms ALG-2|ALG2|PEF1B
Description programmed cell death 6
Reference MIM:601057|HGNC:HGNC:8765|Ensembl:ENSG00000249915|HPRD:03035|Vega:OTTHUMG00000090283
Gene type protein-coding
Map location 5p15.33
Pascal p-value 0.312
Sherlock p-value 0.804
Fetal beta -0.555
DMG 1 (# studies)
eGene Caudate basal ganglia
Cerebellar Hemisphere
Cerebellum

Gene in Data Sources
基因集名称 Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 2
Network Shortest path distance of core genes in the Human protein-protein interaction network Contribution to shortest path in PPI network: 0.0387

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg05694825 5 292125 PDCD6 9.48E-6 0.563 0.013 DMG:Wockner_2014
cg13707777 5 308627 AHRR;PDCD6 2.05E-5 0.33 0.016 DMG:Wockner_2014


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
共有269个时间点秘密策划,n = 38胎儿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
Gene Pearson's Correlation Spearman's Correlation
LY96 0.85 0.80
CGRRF1 0.84 0.74
PXMP3 0.81 0.76
SCRG1 0.78 0.69
LST1 0.74 0.77
PIGB 0.74 0.68
NDUFB1 0.74 0.56
MTCP1NB 0.71 0.64
C18orf32 0.71 0.49
MED31 0.70 0.52
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
CDC2L2 -0.59 -0.65
SUPT6H -0.58 -0.62
MYO18A -0.58 -0.59
TNKS1BP1 -0.58 -0.65
SAFB2 -0.58 -0.63
HNRNPUL2 -0.57 -0.57
SART1 -0.56 -0.64
LONP1 -0.56 -0.53
PELP1 -0.56 -0.65
DDX42 -0.55 -0.56

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005509 calcium ion binding ISS -
GO:0048306 calcium-dependent protein binding 新闻学会 17196169|17214967
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0006915 apoptosis IEA -
GO:0008624 induction of apoptosis by extracellular signals TAS 8560270
GO:0051592 response to calcium ion ISS -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005789 endoplasmic reticulum membrane IEA -
GO:0005634 nucleus IDA 17196169
GO:0005783 endoplasmic reticulum IDA 17196169
GO:0016020 membrane IEA -
GO:0031965 nuclear membrane IEA -

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
ANXA11 ANX11 | CAP50 annexin A11 - HPRD,BioGRID 11883939
CPNE1 COPN1 | CPN1 | MGC1142 copine我 - HPRD 12522145
CPNE2 COPN2 | CPN2 | DKFZp686E06199 | MGC16924 copine我I - HPRD 12522145
CPNE4 COPN4 | CPN4 | MGC15604 copine我V - HPRD 12522145
FAS ALPS1A | APO-1 | APT1 | CD95 | FAS1 | FASTM | TNFRSF6 Fas (TNF receptor superfamily, member 6) - HPRD,BioGRID 11606059
FASLG APT1LG1 | CD178 | CD95L | FASL | TNFSF6 Fas ligand (TNF superfamily, member 6) - HPRD 11606059
HEBP2 C6ORF34B | C6orf34 | KIAA1244 | PP23 | SOUL heme binding protein 2 Two-hybrid BioGRID 16189514
MAP3K5 ASK1 | MAPKKK5 | MEKK5 mitogen-activated protein kinase kinase kinase 5 - HPRD,BioGRID 12372597
MAPK1IP1L C14orf32 | MGC23138 | MISS | c14_5346 mitogen-activated protein kinase 1 interacting protein 1-like Two-hybrid BioGRID 16189514
PDCD6 ALG-2 | FLJ46208 | MGC111017 | MGC119050 | MGC9123 | PEF1B programmed cell death 6 Two-hybrid BioGRID 16189514
PDCD6IP AIP1 | Alix | DRIP4 | HP95 | MGC17003 programmed cell death 6 interacting protein - HPRD,BioGRID 9880530
PEF1 PEF1A | PEFLIN penta-EF-hand domain containing 1 - HPRD,BioGRID 11278427
SH3KBP1 CIN85 | GIG10 | MIG18 SH3-domain kinase binding protein 1 - HPRD,BioGRID 10858458


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
PARENT MTOR SIGNALING UP 567 375 All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382 904 All SZGR 2.0 genes in this pathway
BORCZUK MALIGNANT MESOTHELIOMA UP 305 185 All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY UP 430 232 All SZGR 2.0 genes in this pathway
OSMAN BLADDER CANCER DN 406 230 All SZGR 2.0 genes in this pathway
LAU APOPTOSIS CDKN2A UP 55 40 All SZGR 2.0 genes in this pathway
LI AMPLIFIED IN LUNG CANCER 178 108 All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712 443 All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN DN 584 395 All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS UP 769 437 All SZGR 2.0 genes in this pathway
LOCKWOOD AMPLIFIED IN LUNG CANCER 214 139 All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX 795 478 All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS DN 411 249 All SZGR 2.0 genes in this pathway
STARK PREFRONTAL CORTEX 22Q11 DELETION DN 517 309 All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 5P15 AMPLICON 26 15 All SZGR 2.0 genes in this pathway
NIKOLSKY MUTATED AND AMPLIFIED IN BREAST CANCER 94 60 All SZGR 2.0 genes in this pathway
DING LUNG CANCER EXPRESSION BY COPY NUMBER 100 62 All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 1 UP 140 85 All SZGR 2.0 genes in this pathway
GOLDRATH HOMEOSTATIC PROLIFERATION 171 102 All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP 555 346 All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI UP 412 249 All SZGR 2.0 genes in this pathway
MOREAUX MULTIPLE MYELOMA BY TACI DN 172 107 All SZGR 2.0 genes in this pathway
KUMAR TARGETS OF MLL AF9 FUSION 405 264 All SZGR 2.0 genes in this pathway
REN ALVEOLAR RHABDOMYOSARCOMA DN 408 274 All SZGR 2.0 genes in this pathway
KAAB FAILED HEART ATRIUM DN 141 99 All SZGR 2.0 genes in this pathway
BACOLOD RESISTANCE TO ALKYLATING AGENTS DN 60 45 All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 5 482 296 All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING 510 309 All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP 871 505 All SZGR 2.0 genes in this pathway
GRADE COLON AND RECTAL CANCER UP 285 167 All SZGR 2.0 genes in this pathway
MOOTHA PGC 420 269 All SZGR 2.0 genes in this pathway
AGUIRRE PANCREATIC CANCER COPY NUMBER UP 298 174 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 12 79 54 All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 AND SATB1 DN 180 116 All SZGR 2.0 genes in this pathway
RATTENBACHER BOUND BY CELF1 467 251 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-124.1 381 387 m8 hsa-miR-124a UUAAGGCACGCGGUGAAUGCCA
miR-124/506 380 387 1A,m8 hsa-miR-506 UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brain UAAGGCACGCGGUGAAUGCC
miR-137 433 440 1A,m8 hsa-miR-137 UAUUGCUUAAGAAUACGCGUAG
miR-183 227 233 m8 hsa-miR-183 UAUGGCACUGGUAGAAUUCACUG