SZGR2

Summary ?

GeneID	5292
Symbol	PIM1
Synonyms	PIM
Description	Pim-1 proto-oncogene, serine/threonine kinase
Reference	MIM:164960\|HGNC:HGNC:8986\|Ensembl:ENSG00000137193\|HPRD:01292\|Vega:OTTHUMG00000016426
Gene type	protein-coding
Map location	6p21.2
Pascal p-value	0.375
Sherlock p-value	0.718
Fetal beta	1.004
DMG	1 (# studies)
eGene	Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Nishioka_2013	Genome-wide DNA methylation analysis	The authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls.	1
GSMA_I	Genome scan meta-analysis	Psr: 0.033
GSMA_IIE	Genome scan meta-analysis (European-ancestry samples)	Psr: 0.04433

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
PIM1	chr6	37139113	G	A	NM_001243186 NM_002648	. .	silent silent			Schizophrenia	DNM:Fromer_2014

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg02123547	6	37137464	PIM1		-0.026	0.31	DMG:Nishioka_2013

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs16877878	chr8	31176024	PIM1	5292		0.19		trans

Section II. Transcriptome annotation

General gene expression (GTEx)

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
Gene	Pearson's Correlation	Spearman's Correlation
NAB1	0.81	0.81
CPNE3	0.81	0.73
G3BP1	0.81	0.74
MIB1	0.80	0.81
CREB1	0.80	0.80
TNPO1	0.79	0.77
TMPO	0.79	0.77
PHIP	0.79	0.76
ZNF24	0.79	0.82
ZNF649	0.78	0.66

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
AF347015.31	-0.47	-0.62
MT-CO2	-0.47	-0.62
IFI27	-0.46	-0.62
FXYD1	-0.46	-0.62
PTH1R	-0.46	-0.52
CXCL14	-0.45	-0.64
MT-CYB	-0.45	-0.59
AF347015.27	-0.45	-0.58
AIFM3	-0.45	-0.52
HIGD1B	-0.45	-0.62

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0000166	nucleotide binding	IEA		-
GO:0005515	protein binding	IPI		16186805 \|18056989
GO:0005524	ATP binding	IDA		1825810
GO:0004674	protein serine/threonine kinase activity	IDA		1825810
GO:0016740	transferase activity	IEA		-
GO:0030145	manganese ion binding	IDA		1825810
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006468	protein amino acid phosphorylation	IDA		1825810
GO:0008283	cell proliferation	IDA		16186805
GO:0007275	multicellular organismal development	TAS		2682662
GO:0043066	negative regulation of apoptosis	IDA		16186805
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005634	nucleus	IEA		-
GO:0005737	cytoplasm	IDA		1825810
GO:0005886	plasma membrane	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG JAK STAT SIGNALING PATHWAY	155	105	All SZGR 2.0 genes in this pathway
KEGG ACUTE MYELOID LEUKEMIA	60	47	All SZGR 2.0 genes in this pathway
PID GMCSF PATHWAY	37	31	All SZGR 2.0 genes in this pathway
PID MYC ACTIV PATHWAY	79	62	All SZGR 2.0 genes in this pathway
PID NFAT 3PATHWAY	54	47	All SZGR 2.0 genes in this pathway
PID IL5 PATHWAY	14	11	All SZGR 2.0 genes in this pathway
PID IL3 PATHWAY	27	19	All SZGR 2.0 genes in this pathway
PID CMYB PATHWAY	84	61	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN	663	425	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
CHARAFE BREAST CANCER LUMINAL VS MESENCHYMAL DN	460	312	All SZGR 2.0 genes in this pathway
RODRIGUES DCC TARGETS DN	121	84	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS LIGHTYELLOW UP	11	8	All SZGR 2.0 genes in this pathway
BILBAN B CLL LPL UP	63	39	All SZGR 2.0 genes in this pathway
UDAYAKUMAR MED1 TARGETS DN	240	171	All SZGR 2.0 genes in this pathway
ODONNELL TFRC TARGETS UP	456	228	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 8HR UP	164	122	All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA UP	171	112	All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA BY DMOG UP	130	85	All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS UP	149	84	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN	508	354	All SZGR 2.0 genes in this pathway
HWANG PROSTATE CANCER MARKERS	28	19	All SZGR 2.0 genes in this pathway
BAKER HEMATOPOIESIS STAT3 TARGETS	16	12	All SZGR 2.0 genes in this pathway
BAKER HEMATOPOESIS STAT5 TARGETS	7	7	All SZGR 2.0 genes in this pathway
MYLLYKANGAS AMPLIFICATION HOT SPOT 15	13	9	All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN	514	319	All SZGR 2.0 genes in this pathway
CEBALLOS TARGETS OF TP53 AND MYC DN	38	31	All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP	811	508	All SZGR 2.0 genes in this pathway
AMIT SERUM RESPONSE 120 MCF10A	65	44	All SZGR 2.0 genes in this pathway
GEORGES CELL CYCLE MIR192 TARGETS	62	46	All SZGR 2.0 genes in this pathway
GEORGES TARGETS OF MIR192 AND MIR215	893	528	All SZGR 2.0 genes in this pathway
BYSTROEM CORRELATED WITH IL5 DN	64	47	All SZGR 2.0 genes in this pathway
SHEPARD CRUSH AND BURN MUTANT UP	197	110	All SZGR 2.0 genes in this pathway
DORSAM HOXA9 TARGETS UP	35	25	All SZGR 2.0 genes in this pathway
BROCKE APOPTOSIS REVERSED BY IL6	144	98	All SZGR 2.0 genes in this pathway
ADDYA ERYTHROID DIFFERENTIATION BY HEMIN	73	47	All SZGR 2.0 genes in this pathway
SCHURINGA STAT5A TARGETS UP	21	13	All SZGR 2.0 genes in this pathway
GALINDO IMMUNE RESPONSE TO ENTEROTOXIN	85	67	All SZGR 2.0 genes in this pathway
NADLER HYPERGLYCEMIA AT OBESITY	58	35	All SZGR 2.0 genes in this pathway
GERY CEBP TARGETS	126	90	All SZGR 2.0 genes in this pathway
XU RESPONSE TO TRETINOIN UP	16	10	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
WESTON VEGFA TARGETS	108	71	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 8HR DN	47	31	All SZGR 2.0 genes in this pathway
YAMAZAKI TCEB3 TARGETS DN	215	132	All SZGR 2.0 genes in this pathway
ZHU CMV ALL UP	120	89	All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS PEAK AT 2HR	51	36	All SZGR 2.0 genes in this pathway
SESTO RESPONSE TO UV C1	72	45	All SZGR 2.0 genes in this pathway
ZHU CMV 24 HR UP	93	65	All SZGR 2.0 genes in this pathway
YIH RESPONSE TO ARSENITE C3	36	24	All SZGR 2.0 genes in this pathway
WESTON VEGFA TARGETS 3HR	74	47	All SZGR 2.0 genes in this pathway
BILD HRAS ONCOGENIC SIGNATURE	261	166	All SZGR 2.0 genes in this pathway
CLASPER LYMPHATIC VESSELS DURING METASTASIS UP	20	12	All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE DN	373	196	All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P4	100	62	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED	1022	619	All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE DN	409	268	All SZGR 2.0 genes in this pathway
LEE METASTASIS AND ALTERNATIVE SPLICING UP	74	51	All SZGR 2.0 genes in this pathway
MARZEC IL2 SIGNALING UP	115	80	All SZGR 2.0 genes in this pathway
BONCI TARGETS OF MIR15A AND MIR16 1	91	75	All SZGR 2.0 genes in this pathway
TSUDA ALVEOLAR SOFT PART SARCOMA	10	7	All SZGR 2.0 genes in this pathway
WINTER HYPOXIA METAGENE	242	168	All SZGR 2.0 genes in this pathway
GRESHOCK CANCER COPY NUMBER UP	323	240	All SZGR 2.0 genes in this pathway
GOLDRATH ANTIGEN RESPONSE	346	192	All SZGR 2.0 genes in this pathway
MARSHALL VIRAL INFECTION RESPONSE DN	29	21	All SZGR 2.0 genes in this pathway
PARK TRETINOIN RESPONSE	12	8	All SZGR 2.0 genes in this pathway
PARK TRETINOIN RESPONSE AND PML RARA FUSION	30	21	All SZGR 2.0 genes in this pathway
PARK TRETINOIN RESPONSE AND RARA PLZF FUSION	22	14	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
RAY TARGETS OF P210 BCR ABL FUSION UP	18	13	All SZGR 2.0 genes in this pathway
MUELLER COMMON TARGETS OF AML FUSIONS DN	31	21	All SZGR 2.0 genes in this pathway
VANTVEER BREAST CANCER ESR1 DN	240	153	All SZGR 2.0 genes in this pathway
HSIAO HOUSEKEEPING GENES	389	245	All SZGR 2.0 genes in this pathway
VALK AML CLUSTER 2	29	14	All SZGR 2.0 genes in this pathway
VALK AML WITH FLT3 ITD	40	22	All SZGR 2.0 genes in this pathway
YAGI AML WITH 11Q23 REARRANGED	351	238	All SZGR 2.0 genes in this pathway
KYNG WERNER SYNDROM AND NORMAL AGING UP	93	62	All SZGR 2.0 genes in this pathway
DANG REGULATED BY MYC DN	253	192	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 4HR DN	254	158	All SZGR 2.0 genes in this pathway
WANG RESPONSE TO GSK3 INHIBITOR SB216763 DN	374	217	All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS UP	217	131	All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS GROUP1	136	76	All SZGR 2.0 genes in this pathway
ACOSTA PROLIFERATION INDEPENDENT MYC TARGETS DN	116	74	All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP	682	433	All SZGR 2.0 genes in this pathway
KOINUMA TARGETS OF SMAD2 OR SMAD3	824	528	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 AND SATB1 UP	87	52	All SZGR 2.0 genes in this pathway
SMIRNOV RESPONSE TO IR 2HR UP	53	33	All SZGR 2.0 genes in this pathway
ZWANG CLASS 1 TRANSIENTLY INDUCED BY EGF	516	308	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-1/206	137	143	1A	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-101	1212	1218	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-124/506	441	447	m8	hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
				hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
				hsa-miR-506	UAAGGCACCCUUCUGAGUAGA
				hsa-miR-124^brain	UAAGGCACGCGGUGAAUGCC
miR-144	1211	1218	1A,m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-15/16/195/424/497	501	507	m8	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-150	469	475	1A	hsa-miR-150	UCUCCCAACCCUUGUACCAGUG
miR-183	583	589	m8	hsa-miR-183	UAUGGCACUGGUAGAAUUCACUG
miR-214	499	505	m8	hsa-miR-214^brain	ACAGCAGGCACAGACAGGCAG
miR-24	613	620	1A,m8	hsa-miR-24^SZ	UGGCUCAGUUCAGCAGGAACAG
miR-26	478	485	1A,m8	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	478	485	1A,m8	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-328	602	609	1A,m8	hsa-miR-328^brain	CUGGCCCUCUCUGCCCUUCCGU
miR-33	686	693	1A,m8	hsa-miR-33	GUGCAUUGUAGUUGCAUUG
miR-33	686	693	1A,m8	hsa-miR-33b	GUGCAUUGCUGUUGCAUUGCA
miR-331	1219	1225	1A	hsa-miR-331^brain	GCCCCUGGGCCUAUCCUAGAA
miR-486	1216	1222	m8	hsa-miR-486	UCCUGUACUGAGCUGCCCCGAG
miR-542-3p	415	421	m8	hsa-miR-542-3p	UGUGACAGAUUGAUAACUGAAA

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: PIM1