Gene Page:BCL9

Summary?
GeneID 607
Symbol BCL9
Synonyms LGS
Description B-cell CLL/lymphoma 9
Reference MIM:602597|HGNC:HGNC:1008|Ensembl:ENSG00000116128|HPRD:04000|Vega:OTTHUMG00000014031
Gene type protein-coding
Map location 1q21
Sherlock p-value 0.234
Fetal beta 1.862
DMG 1 (# studies)
eGene Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene set Description Info
CNV:YES Copy number variation studies Manual curation
CV:GWAScat Genome-wide Association Studies This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:GWASdb Genome-wide Association Studies GWASdb records for schizophrenia
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
PMID:cooccur High-throughput literature-search 系统搜索PubMed的基因co-occurring with SCZ keywords. A total of 3027 genes were included.
GSMA_I Genome scan meta-analysis Psr: 0.0235
GSMA_IIA Genome scan meta-analysis (All samples) Psr: 0.00814
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg12608682 1 147071766 BCL9 4.097E-4 -0.226 0.044 DMG:Wockner_2014
cg21813591 1 147071537 BCL9 4.703E-4 -0.626 0.046 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs16829545 chr2 151977407 BCL9 607 0 trans
rs3106445 chr3 165326464 BCL9 607 0.19 trans
rs1199915 0 BCL9 607 0.1 trans
rs520325 chr3 165361016 BCL9 607 0.11 trans
rs16955618 chr15 29937543 BCL9 607 0.03 trans

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
Gene Pearson's Correlation Spearman's Correlation
OGDHL 0.90 0.91
FADS6 0.85 0.86
EML2 0.85 0.89
SPOCK2 0.83 0.84
CEND1 0.82 0.88
TOM1 0.82 0.83
ABHD12 0.81 0.84
LPCAT4 0.81 0.84
MYH7B 0.81 0.79
DLGAP3 0.80 0.89
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
KIAA1949 -0.52 -0.49
TUBB2B -0.51 -0.56
ZNF300 -0.51 -0.44
RBMX2 -0.50 -0.62
IGF2BP3 -0.50 -0.56
ZNF551 -0.49 -0.45
ZNF311 -0.49 -0.46
FNBP1L -0.49 -0.41
CD24 -0.49 -0.37
CARHSP1 -0.49 -0.59

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0005515 protein binding 新闻学会 11955446|17113272
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0016055 Wnt receptor signaling pathway IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005634 nucleus IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
WNT SIGNALING 89 71 All SZGR 2.0 genes in this pathway
PID BETA CATENIN NUC PATHWAY 80 60 All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER UP 443 294 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552 347 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
SUZUKI AMPLIFIED IN ORAL CANCER 16 12 All SZGR 2.0 genes in this pathway
MYLLYKANGAS AMPLIFICATION HOT SPOT 17 25 12 All SZGR 2.0 genes in this pathway
MYLLYKANGAS AMPLIFICATION HOT SPOT 24 14 7 All SZGR 2.0 genes in this pathway
DAIRKEE TERT TARGETS DN 124 79 All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514 330 All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS 988 594 All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS 734 436 All SZGR 2.0 genes in this pathway
PENG GLUTAMINE DEPRIVATION UP 38 25 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 6HR DN 160 101 All SZGR 2.0 genes in this pathway
道格拉斯BMI1目标了 566 371 All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE DN 409 268 All SZGR 2.0 genes in this pathway
GRESHOCK CANCER COPY NUMBER UP 323 240 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457 302 All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS DN 414 237 All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN 1972 1213 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP B 549 316 All SZGR 2.0 genes in this pathway
ZWANG EGF INTERVAL DN 214 124 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-101 409 416 1A,m8 hsa-miR-101 UACAGUACUGUGAUAACUGAAG
miR-129-5p 597 603 1A hsa-miR-129brain CUUUUUGCGGUCUGGGCUUGC
hsa-miR-129-5p CUUUUUGCGGUCUGGGCUUGCU
miR-140 1201 1207 m8 hsa-miR-140brain AGUGGUUUUACCCUAUGGUAG
miR-144 410 416 1A hsa-miR-144 UACAGUAUAGAUGAUGUACUAG
miR-15/16/195/424/497 1 7 1A hsa-miR-15abrain UAGCAGCACAUAAUGGUUUGUG
hsa-miR-16brain UAGCAGCACGUAAAUAUUGGCG
hsa-miR-15bbrain UAGCAGCACAUCAUGGUUUACA
hsa-miR-195SZ UAGCAGCACAGAAAUAUUGGC
hsa-miR-424 CAGCAGCAAUUCAUGUUUUGAA
hsa-miR-497 CAGCAGCACACUGUGGUUUGU
miR-181 149 155 1A hsa-miR-181abrain AACAUUCAACGCUGUCGGUGAGU
hsa-miR-181bSZ AACAUUCAUUGCUGUCGGUGGG
hsa-miR-181cbrain AACAUUCAACCUGUCGGUGAGU
hsa-miR-181dbrain AACAUUCAUUGUUGUCGGUGGGUU
miR-186 361 367 m8 hsa-miR-186 CAAAGAAUUCUCCUUUUGGGCUU
miR-188 428 434 m8 hsa-miR-188 CAUCCCUUGCAUGGUGGAGGGU
miR-200bc/429 580 586 1A hsa-miR-200b UAAUACUGCCUGGUAAUGAUGAC
hsa-miR-200c UAAUACUGCCGGGUAAUGAUGG
hsa-miR-429 UAAUACUGUCUGGUAAAACCGU
miR-204/211 427 433 m8 hsa-miR-204brain UUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211 UUCCCUUUGUCAUCCUUCGCCU
miR-216 36 42 m8 hsa-miR-216 UAAUCUCAGCUGGCAACUGUG
miR-218 592 599 1A,m8 hsa-miR-218brain UUGUGCUUGAUCUAACCAUGU
miR-22 850 856 m8 hsa-miR-22brain AAGCUGCCAGUUGAAGAACUGU
miR-25/32/92/363/367 856 862 1A hsa-miR-25brain CAUUGCACUUGUCUCGGUCUGA
hsa-miR-32 UAUUGCACAUUACUAAGUUGC
hsa-miR-92 UAUUGCACUUGUCCCGGCCUG
hsa-miR-367 AAUUGCACUUUAGCAAUGGUGA
hsa-miR-92bSZ UAUUGCACUCGUCCCGGCCUC
miR-30-5p 486 492 m8 hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
miR-329 194 200 m8 hsa-miR-329brain AACACACCUGGUUAACCUCUUU
miR-330 124 130 m8 hsa-miR-330brain GCAAAGCACACGGCCUGCAGAGA
hsa-miR-330brain GCAAAGCACACGGCCUGCAGAGA
miR-338 477 483 m8 hsa-miR-338brain UCCAGCAUCAGUGAUUUUGUUGA
miR-503 1 7 1A hsa-miR-503 UAGCAGCGGGAACAGUUCUGCAG