SZGR2

Summary ?

GeneID	5933
Symbol	RBL1
Synonyms	CP107\|PRB1\|p107
Description	retinoblastoma-like 1
Reference	MIM:116957\|HGNC:HGNC:9893\|Ensembl:ENSG00000080839\|HPRD:00312\|Vega:OTTHUMG00000032406
Gene type	protein-coding
Map location	20q11.2
Pascal p-value	0.222
Fetal beta	1.471
DMG	1 (# studies)

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Jaffe_2016	Genome-wide DNA methylation analysis	This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05.	1

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg21570468	20	35724588	RBL1	5.41E-8	-0.005	1.4E-5	DMG:Jaffe_2016

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
KIAA1429	0.93	0.93
CEBPZ	0.93	0.93
PRPF40A	0.92	0.93
XPO1	0.92	0.93
RMI1	0.92	0.91
N4BP2L2	0.92	0.92
DHX15	0.92	0.92
NUP54	0.92	0.92
CRNKL1	0.92	0.91
USP1	0.91	0.92

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
MT-CO2	-0.69	-0.83
AF347015.31	-0.69	-0.83
AF347015.33	-0.67	-0.80
AF347015.27	-0.67	-0.80
MT-CYB	-0.67	-0.81
AF347015.8	-0.67	-0.82
AF347015.15	-0.66	-0.82
PTH1R	-0.66	-0.76
HLA-F	-0.65	-0.74
IFI27	-0.65	-0.82

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
AATF	CHE-1 \| CHE1 \| DED	apoptosis antagonizing transcription factor	Affinity Capture-Western	BioGRID	12450794
ARID4A	RBBP1 \| RBP-1 \| RBP1	AT rich interactive domain 4A (RBP1-like)	Affinity Capture-Western	BioGRID	10490602
BEGAIN	KIAA1446	brain-enriched guanylate kinase-associated homolog (rat)	Affinity Capture-Western Two-hybrid	BioGRID	16189514
BRCA1	BRCAI \| BRCC1 \| IRIS \| PSCP \| RNF53	breast cancer 1, early onset	Co-localization Reconstituted Complex	BioGRID	11521194
BRF1	BRF \| FLJ42674 \| FLJ43034 \| GTF3B \| MGC105048 \| TAF3B2 \| TAF3C \| TAFIII90 \| TF3B90 \| TFIIIB90 \| hBRF	BRF1 homolog, subunit of RNA polymerase III transcription initiation factor IIIB (S. cerevisiae)	-	HPRD,BioGRID	10330166
CCNA1	-	cyclin A1	Reconstituted Complex	BioGRID	10022926
CCNA2	CCN1 \| CCNA	cyclin A2	-	HPRD,BioGRID	1532458 \|8230483 \|12439743
CCND1	BCL1 \| D11S287E \| PRAD1 \| U21B31	cyclin D1	-	HPRD,BioGRID	8643455
CCNE1	CCNE	cyclin E1	-	HPRD	8230483
CCNE1	CCNE	cyclin E1	Affinity Capture-Western	BioGRID	9891079
CDK2	p33(CDK2)	cyclin-dependent kinase 2	Biochemical Activity in vitro in vivo	BioGRID	9891079 \|11884610
CDK2	p33(CDK2)	cyclin-dependent kinase 2	-	HPRD	8230483\|11884610
CDKN1C	BWCR \| BWS \| KIP2 \| WBS \| p57	cyclin-dependent kinase inhibitor 1C (p57, Kip2)	Affinity Capture-Western	BioGRID	12947099
CREG1	CREG	cellular repressor of E1A-stimulated genes 1	-	HPRD,BioGRID	9710587
E2F1	E2F-1 \| RBAP1 \| RBBP3 \| RBP3	E2F transcription factor 1	Affinity Capture-Western Reconstituted Complex	BioGRID	8230483
E2F1	E2F-1 \| RBAP1 \| RBBP3 \| RBP3	E2F transcription factor 1	E2F1 interacts with the p107 promoter region.	BIND	10766737
E2F2	E2F-2	E2F transcription factor 2	E2F2 interacts with the p107 promoter region.	BIND	10766737
E2F4	E2F-4	E2F transcription factor 4, p107/p130-binding	E2F4 interacts with the p107 promoter region.	BIND	10766737
E2F4	E2F-4	E2F transcription factor 4, p107/p130-binding	p107 interacts with E2F4.	BIND	8816797
E2F4	E2F-4	E2F transcription factor 4, p107/p130-binding	-	HPRD,BioGRID	8643455 \|11573202 \|12150994
E2F5	E2F-5	E2F transcription factor 5, p130-binding	Two-hybrid	BioGRID	7760804
HDAC1	DKFZp686H12203 \| GON-10 \| HD1 \| RPD3 \| RPD3L1	histone deacetylase 1	-	HPRD,BioGRID	9724731
HDAC2	RPD3 \| YAF1	histone deacetylase 2	Affinity Capture-Western	BioGRID	10490602
HDAC3	HD3 \| RPD3 \| RPD3-2	histone deacetylase 3	Affinity Capture-Western	BioGRID	10490602
JARID1A	KDM5A \| RBBP2 \| RBP2	jumonji, AT rich interactive domain 1A	-	HPRD,BioGRID	7935440
LIN9	BARA \| BARPsv \| Lin-9 \| TGS \| TGS1	lin-9 homolog (C. elegans)	hMip130/TWIT interacts with p107.	BIND	15479636
MCM7	CDABP0042 \| CDC47 \| MCM2 \| P1.1-MCM3 \| P1CDC47 \| P85MCM \| PNAS-146	minichromosome maintenance complex component 7	-	HPRD,BioGRID	9566894
MCM7	CDABP0042 \| CDC47 \| MCM2 \| P1.1-MCM3 \| P1CDC47 \| P85MCM \| PNAS-146	minichromosome maintenance complex component 7	MCM7 interacts with p107.	BIND	9566894
MT1G	MGC12386 \| MT1 \| MT1K	metallothionein 1G	RBL1 (P107) interacts with the MT1G promoter.	BIND	15735762
MYBL2	B-MYB \| BMYB \| MGC15600	v-myb myeloblastosis viral oncogene homolog (avian)-like 2	-	HPRD,BioGRID	12439743 \|12947099
MYC	bHLHe39 \| c-Myc	v-myc myelocytomatosis viral oncogene homolog (avian)	-	HPRD,BioGRID	8076603
PHB	PHB1	prohibitin	in vitro in vivo	BioGRID	10376528
PPP2R3A	PPP2R3 \| PR130 \| PR72	protein phosphatase 2 (formerly 2A), regulatory subunit B'', alpha	Affinity Capture-Western	BioGRID	9927208
RB1	OSRC \| RB \| p105-Rb \| pRb \| pp110	retinoblastoma 1	Rb interacts with the p107 promoter.	BIND	15716956
RB1	OSRC \| RB \| p105-Rb \| pRb \| pp110	retinoblastoma 1	Affinity Capture-Western	BioGRID	10490602
RBBP8	CTIP \| RIM	retinoblastoma binding protein 8	-	HPRD,BioGRID	9721205
RBBP9	BOG \| MGC9236 \| RBBP10	retinoblastoma binding protein 9	-	HPRD,BioGRID	9697699
RBL2	FLJ26459 \| P130 \| Rb2	retinoblastoma-like 2 (p130)	p130 interacts with the p107 promoter region.	BIND	10766737
SMAD2	JV18 \| JV18-1 \| MADH2 \| MADR2 \| MGC22139 \| MGC34440 \| hMAD-2 \| hSMAD2	SMAD family member 2	-	HPRD	12150994
SMAD3	DKFZp586N0721 \| DKFZp686J10186 \| HSPC193 \| HsT17436 \| JV15-2 \| MADH3 \| MGC60396	SMAD family member 3	-	HPRD,BioGRID	12150994
SMAD4	DPC4 \| JIP \| MADH4	SMAD family member 4	-	HPRD,BioGRID	12150994
SNW1	Bx42 \| MGC119379 \| NCOA-62 \| PRPF45 \| Prp45 \| SKIIP \| SKIP	SNW domain containing 1	-	HPRD,BioGRID	12466551
SUV39H1	KMT1A \| MG44 \| SUV39H	suppressor of variegation 3-9 homolog 1 (Drosophila)	Affinity Capture-Western	BioGRID	12588981
TAF1	BA2R \| CCG1 \| CCGS \| DYT3 \| KAT4 \| N-TAF1 \| NSCL2 \| OF \| P250 \| TAF2A \| TAFII250	TAF1 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 250kDa	-	HPRD,BioGRID	9242374
TFDP1	DP1 \| DRTF1 \| Dp-1	transcription factor Dp-1	Affinity Capture-Western	BioGRID	7739537
TFDP2	DP2 \| Dp-2	transcription factor Dp-2 (E2F dimerization partner 2)	Affinity Capture-Western	BioGRID	7739537
USP4	MGC149848 \| MGC149849 \| UNP \| Unph	ubiquitin specific peptidase 4 (proto-oncogene)	in vitro in vivo	BioGRID	11571651
UXT	ART-27	ubiquitously-expressed transcript	p107 interacts with the UXT chromatin.	BIND	11799066

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG CELL CYCLE	128	84	All SZGR 2.0 genes in this pathway
KEGG TGF BETA SIGNALING PATHWAY	86	64	All SZGR 2.0 genes in this pathway
BIOCARTA CELLCYCLE PATHWAY	23	15	All SZGR 2.0 genes in this pathway
BIOCARTA ETS PATHWAY	18	12	All SZGR 2.0 genes in this pathway
PID SMAD2 3NUCLEAR PATHWAY	82	63	All SZGR 2.0 genes in this pathway
PID E2F PATHWAY	74	48	All SZGR 2.0 genes in this pathway
PID MYC REPRESS PATHWAY	63	52	All SZGR 2.0 genes in this pathway
REACTOME G0 AND EARLY G1	25	13	All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE	421	253	All SZGR 2.0 genes in this pathway
REACTOME SMAD2 SMAD3 SMAD4 HETEROTRIMER REGULATES TRANSCRIPTION	27	17	All SZGR 2.0 genes in this pathway
REACTOME TRANSCRIPTIONAL ACTIVITY OF SMAD2 SMAD3 SMAD4 HETEROTRIMER	38	26	All SZGR 2.0 genes in this pathway
REACTOME GENERIC TRANSCRIPTION PATHWAY	352	181	All SZGR 2.0 genes in this pathway
REACTOME CELL CYCLE MITOTIC	325	185	All SZGR 2.0 genes in this pathway
REACTOME G1 PHASE	38	23	All SZGR 2.0 genes in this pathway
REACTOME MITOTIC G1 G1 S PHASES	137	79	All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY TGF BETA RECEPTOR COMPLEX	63	42	All SZGR 2.0 genes in this pathway
CASORELLI ACUTE PROMYELOCYTIC LEUKEMIA DN	663	425	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN	1375	806	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED UP	633	376	All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS UP	126	72	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 1 DN	378	231	All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 3 UP	329	196	All SZGR 2.0 genes in this pathway
MARKEY RB1 CHRONIC LOF UP	115	78	All SZGR 2.0 genes in this pathway
MARKEY RB1 ACUTE LOF DN	228	137	All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN	1781	1082	All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN DN	770	415	All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA UP	536	340	All SZGR 2.0 genes in this pathway
STREICHER LSM1 TARGETS UP	44	34	All SZGR 2.0 genes in this pathway
STREICHER LSM1 TARGETS DN	19	13	All SZGR 2.0 genes in this pathway
KONG E2F3 TARGETS	97	58	All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION	77	51	All SZGR 2.0 genes in this pathway
HERNANDEZ MITOTIC ARREST BY DOCETAXEL 1 DN	38	23	All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS NEUROEPITHELIUM DN	164	111	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
GOTZMANN EPITHELIAL TO MESENCHYMAL TRANSITION UP	69	55	All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
BENPORATH ES CORE NINE CORRELATED	100	68	All SZGR 2.0 genes in this pathway
ZHANG RESPONSE TO IKK INHIBITOR AND TNF DN	103	64	All SZGR 2.0 genes in this pathway
MORI SMALL PRE BII LYMPHOCYTE DN	76	52	All SZGR 2.0 genes in this pathway
LE EGR2 TARGETS UP	108	75	All SZGR 2.0 genes in this pathway
REN BOUND BY E2F	61	40	All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA CD1 AND CD2 UP	89	51	All SZGR 2.0 genes in this pathway
KAMMINGA EZH2 TARGETS	41	26	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT UP	390	242	All SZGR 2.0 genes in this pathway
PAL PRMT5 TARGETS UP	203	135	All SZGR 2.0 genes in this pathway
KAYO AGING MUSCLE UP	244	165	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP	1691	1088	All SZGR 2.0 genes in this pathway
CHEN ETV5 TARGETS TESTIS	23	14	All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE DN	373	196	All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3	491	310	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED	1022	619	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED	1229	713	All SZGR 2.0 genes in this pathway
MARSON BOUND BY E2F4 UNSTIMULATED	728	415	All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE DN	409	268	All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE BY GAMMA AND UV RADIATION	88	65	All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE DN	195	135	All SZGR 2.0 genes in this pathway
SARRIO EPITHELIAL MESENCHYMAL TRANSITION UP	180	114	All SZGR 2.0 genes in this pathway
DE YY1 TARGETS DN	92	64	All SZGR 2.0 genes in this pathway
ZHANG BREAST CANCER PROGENITORS UP	425	253	All SZGR 2.0 genes in this pathway
ZHENG GLIOBLASTOMA PLASTICITY UP	250	168	All SZGR 2.0 genes in this pathway
HOFFMANN LARGE TO SMALL PRE BII LYMPHOCYTE UP	163	102	All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER POOR SURVIVAL A6	456	285	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 36HR DN	185	116	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 60HR DN	277	166	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS DN	89	50	All SZGR 2.0 genes in this pathway
ONO AML1 TARGETS DN	41	25	All SZGR 2.0 genes in this pathway
ONO FOXP3 TARGETS DN	42	23	All SZGR 2.0 genes in this pathway
PYEON CANCER HEAD AND NECK VS CERVICAL UP	193	95	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 6HR UP	229	149	All SZGR 2.0 genes in this pathway
DUTERTRE ESTRADIOL RESPONSE 24HR UP	324	193	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 3 DN	918	550	All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION UP	570	339	All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG BOUND 8D	658	397	All SZGR 2.0 genes in this pathway
YU BAP1 TARGETS	29	21	All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM A	182	108	All SZGR 2.0 genes in this pathway

Gene Page: RBL1