Gene Page:PBX1
Summary?
| GeneID | 5087 |
| Symbol | PBX1 |
| Synonyms | - |
| Description | pre-B-cell leukemia homeobox 1 |
| Reference | MIM:176310|HGNC:HGNC:8632|Ensembl:ENSG00000185630|HPRD:08889|Vega:OTTHUMG00000034307 |
| Gene type | protein-coding |
| Map location | 1q23 |
| Fetal beta | 1.761 |
| DMG | 1 (# studies) |
| eGene | Myers' cis & trans |
| 支持 | CompositeSet |
Gene in Data Sources
| Gene set name | Method of gene set | Description | Info |
|---|---|---|---|
| CV:PGCnp | Genome-wide Association Study | GWAS | |
| DMG:vanEijk_2014 | Genome-wide DNA methylation analysis | This dataset includes 432 differentially methylated CpG sites corresponding to 391 unique transcripts between schizophrenia patients (n=260) and unaffected controls (n=250). | 1 |
| DNM:Fromer_2014 | Whole Exome Sequencing analysis | This study reported a WES study of 623 schizophrenia trios, reporting DNMs using genomic DNA. | |
| PMID:cooccur | High-throughput literature-search | 系统的search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
| Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias | Click to show details |
Section I. Genetics and epigenetics annotation
DNM table
DNM table| Gene | Chromosome | Position | Ref | Alt | Transcript | AA change | Mutation type | Sift | CG46 | Trait | Study |
|---|---|---|---|---|---|---|---|---|---|---|---|
| PBX1 | chr1 | 164532546 | C | T | NM_001204961 NM_001204961 NM_001204963 NM_001204963 NM_002585 NM_002585 |
. p.88T>I . p.88T>I . p.88T>I |
splice missense splice missense splice missense |
Schizophrenia | DNM:Fromer_2014 |
Differentially methylated gene
| Probe | Chromosome | Position | Nearest gene | P (dis) | Beta (dis) | FDR (dis) | Study |
|---|---|---|---|---|---|---|---|
| cg00532890 | 1 | 164528682 | PBX1 | 0.022 | -2.144 | DMG:vanEijk_2014 |
eQTL annotation
| SNP ID | Chromosome | Position | eGene | Gene Entrez ID | pvalue | qvalue | TSS distance | eQTL type |
|---|---|---|---|---|---|---|---|---|
| rs7551594 | chr1 | 165625473 | PBX1 | 5087 | 0.19 | cis | ||
| rs17029291 | chr3 | 32402138 | PBX1 | 5087 | 0.04 | trans | ||
| rs16958358 | chr17 | 55502410 | PBX1 | 5087 | 0.07 | 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 |
| RIC8A | 0.92 | 0.93 |
| COBRA1 | 0.92 | 0.92 |
| SGTA | 0.92 | 0.93 |
| ALKBH4 | 0.91 | 0.92 |
| UBE2J2 | 0.91 | 0.91 |
| KLHL22 | 0.91 | 0.92 |
| CCDC115 | 0.91 | 0.91 |
| C19orf22 | 0.90 | 0.91 |
| GRK6 | 0.90 | 0.92 |
| TMEM115 | 0.90 | 0.90 |
| Top 10 negatively co-expressed genes | ||
| Gene | Pearson's Correlation | Spearman's Correlation |
| AF347015.27 | -0.75 | -0.80 |
| AF347015.8 | -0.75 | -0.81 |
| MT-CO2 | -0.75 | -0.79 |
| AF347015.33 | -0.75 | -0.79 |
| MT-CYB | -0.73 | -0.78 |
| AF347015.31 | -0.73 | -0.77 |
| AF347015.15 | -0.71 | -0.78 |
| AF347015.21 | -0.71 | -0.79 |
| AF347015.2 | -0.69 | -0.75 |
| AF347015.26 | -0.69 | -0.76 |
Section IV. Protein-protein interaction annotation
| Interactors | Aliases B | Official full name B | Experimental | Source | PubMed ID |
|---|---|---|---|---|---|
| HOXA5 | HOX1 | HOX1.3 | HOX1C | MGC9376 | homeobox A5 | in vivo | BioGRID | 8657138 |
| HOXA9 | ABD-B | HOX1 | HOX1.7 | HOX1G | MGC1934 | homeobox A9 | Reconstituted Complex | BioGRID | 10082572 |
| HOXB1 | HOX2 | HOX2I | Hox-2.9 | MGC116843 | MGC116844 | MGC116845 | homeobox B1 | - | HPRD,BioGRID | 10052460 |
| HOXB7 | HHO.C1 | HOX2 | HOX2C | Hox-2.3 | homeobox B7 | Reconstituted Complex Two-hybrid |
BioGRID | 7729685 |
| HOXB8 | HOX2 | HOX2D | Hox-2.4 | homeobox B8 | Reconstituted Complex | BioGRID | 11571641 |
| HOXD4 | HHO.C13 | HOX-5.1 | HOX4 | HOX4B | Hox-4.2 | homeobox D4 | Reconstituted Complex | BioGRID | 10523646 |
| HOXD9 | HOX4 | HOX4C | Hox-4.3 | Hox-5.2 | homeobox D9 | Reconstituted Complex | BioGRID | 10523646 |
| MEIS1 | MGC43380 | Meis homeobox 1 | Reconstituted Complex | BioGRID | 10082572|10523646 |
| MYH10 | MGC134913 | MGC134914 | NMMHCB | myosin, heavy chain 10, non-muscle | Affinity Capture-Western | BioGRID | 12724421 |
| NR3C1 | GCCR | GCR | GR | GRL | nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) | Affinity Capture-Western | BioGRID | 12487626 |
| PAX6 | AN | AN2 | D11S812E | MGC17209 | MGDA | WAGR | paired box 6 | Pax6 interacts with Pbx1. This interaction was modeled on a demonstrated interaction between zebrafish Pax6 and human Pbx1. | BIND | 11069920 |
| PKNOX1 | PREP1 | pkonx1c | PBX/knotted 1 homeobox 1 | Reconstituted Complex | BioGRID | 9482740 |
Section V. Pathway annotation
| Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
|---|---|---|---|
| PID REG GR PATHWAY | 82 | 60 | All SZGR 2.0 genes in this pathway |
| LIU SOX4 TARGETS DN | 309 | 191 | All SZGR 2.0 genes in this pathway |
| ONKEN UVEAL MELANOMA DN | 526 | 357 | All SZGR 2.0 genes in this pathway |
| CHARAFE BREAST CANCER LUMINAL VS BASAL UP | 380 | 215 | All SZGR 2.0 genes in this pathway |
| DOANE BREAST CANCER ESR1 UP | 112 | 72 | All SZGR 2.0 genes in this pathway |
| SENESE HDAC1 TARGETS DN | 260 | 143 | All SZGR 2.0 genes in this pathway |
| RODRIGUES THYROID CARCINOMA ANAPLASTIC DN | 537 | 339 | All SZGR 2.0 genes in this pathway |
| GRAESSMANN APOPTOSIS BY DOXORUBICIN DN | 1781 | 1082 | All SZGR 2.0 genes in this pathway |
| STREICHER LSM1 TARGETS UP | 44 | 34 | All SZGR 2.0 genes in this pathway |
| BEGUM TARGETS OF PAX3 FOXO1 FUSION UP | 60 | 45 | 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 |
| FARMER BREAST CANCER BASAL VS LULMINAL | 330 | 215 | All SZGR 2.0 genes in this pathway |
| MOHANKUMAR TLX1 TARGETS UP | 414 | 287 | All SZGR 2.0 genes in this pathway |
| NUYTTEN NIPP1 TARGETS DN | 848 | 527 | All SZGR 2.0 genes in this pathway |
| LOCKWOOD AMPLIFIED IN LUNG CANCER | 214 | 139 | All SZGR 2.0 genes in this pathway |
| RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY UP | 236 | 139 | All SZGR 2.0 genes in this pathway |
| RICKMAN TUMOR DIFFERENTIATED WELL VS MODERATELY UP | 109 | 69 | All SZGR 2.0 genes in this pathway |
| BENPORATH NANOG TARGETS | 988 | 594 | All SZGR 2.0 genes in this pathway |
| STARK PREFRONTAL CORTEX 22Q11 DELETION UP | 195 | 138 | All SZGR 2.0 genes in this pathway |
| 霁转移STK11压抑 | 27 | 17 | All SZGR 2.0 genes in this pathway |
| BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS | 882 | 572 | All SZGR 2.0 genes in this pathway |
| MAGRANGEAS MULTIPLE MYELOMA IGLL VS IGLK DN | 24 | 18 | All SZGR 2.0 genes in this pathway |
| HADDAD T LYMPHOCYTE AND NK PROGENITOR UP | 78 | 56 | All SZGR 2.0 genes in this pathway |
| ZHAN MULTIPLE MYELOMA MS UP | 48 | 32 | All SZGR 2.0 genes in this pathway |
| YAGI AML FAB MARKERS | 191 | 131 | All SZGR 2.0 genes in this pathway |
| BRUNO HEMATOPOIESIS | 66 | 48 | All SZGR 2.0 genes in this pathway |
| 布朗感染血巨细胞病毒16小时DN | 86 | 62 | All SZGR 2.0 genes in this pathway |
| BROWNE HCMV INFECTION 48HR DN | 504 | 323 | All SZGR 2.0 genes in this pathway |
| MCCLUNG COCAIN REWARD 4WK | 75 | 47 | All SZGR 2.0 genes in this pathway |
| CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 | 528 | 324 | All SZGR 2.0 genes in this pathway |
| CREIGHTON ENDOCRINE THERAPY RESISTANCE 5 | 482 | 296 | 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 |
| HELLER HDAC TARGETS DN | 292 | 189 | All SZGR 2.0 genes in this pathway |
| MASSARWEH TAMOXIFEN RESISTANCE UP | 578 | 341 | All SZGR 2.0 genes in this pathway |
| RIGGI EWING SARCOMA PROGENITOR UP | 430 | 288 | All SZGR 2.0 genes in this pathway |
| ACEVEDO LIVER CANCER WITH H3K27ME3 UP | 295 | 149 | All SZGR 2.0 genes in this pathway |
| SMID BREAST CANCER BASAL DN | 701 | 446 | All SZGR 2.0 genes in this pathway |
| IZADPANAH STEM CELL ADIPOSE VS BONE DN | 108 | 68 | All SZGR 2.0 genes in this pathway |
| 拉贝风TGFB1 TARGETS DN | 108 | 64 | All SZGR 2.0 genes in this pathway |
| MUELLER PLURINET | 299 | 189 | All SZGR 2.0 genes in this pathway |
| GRESHOCK CANCER COPY NUMBER UP | 323 | 240 | All SZGR 2.0 genes in this pathway |
| LEE LIVER CANCER SURVIVAL DN | 175 | 103 | All SZGR 2.0 genes in this pathway |
| VANTVEER BREAST CANCER ESR1 UP | 167 | 99 | All SZGR 2.0 genes in this pathway |
| VALK AML CLUSTER 8 | 26 | 17 | All SZGR 2.0 genes in this pathway |
| KOBAYASHI EGFR SIGNALING 24HR UP | 101 | 65 | All SZGR 2.0 genes in this pathway |
| KYNG WERNER SYNDROM AND NORMAL AGING DN | 225 | 124 | All SZGR 2.0 genes in this pathway |
| BYSTRYKH HEMATOPOIESIS STEM CELL SCP2 QTL TRANS | 25 | 13 | All SZGR 2.0 genes in this pathway |
| WONG ADULT TISSUE STEM MODULE | 721 | 492 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN ES ICP WITH H3K4ME3 | 718 | 401 | All SZGR 2.0 genes in this pathway |
| MIKKELSEN NPC ICP WITH H3K4ME3 | 445 | 257 | All SZGR 2.0 genes in this pathway |
| NIELSEN LEIOMYOSARCOMA DN | 18 | 11 | All SZGR 2.0 genes in this pathway |
| GABRIELY MIR21 TARGETS | 289 | 187 | All SZGR 2.0 genes in this pathway |
| WIERENGA STAT5A TARGETS DN | 213 | 127 | All SZGR 2.0 genes in this pathway |
| PILON KLF1 TARGETS UP | 504 | 321 | All SZGR 2.0 genes in this pathway |
| BHAT ESR1 TARGETS NOT VIA AKT1 DN | 88 | 61 | All SZGR 2.0 genes in this pathway |
| TORCHIA TARGETS OF EWSR1 FLI1 FUSION DN | 321 | 200 | All SZGR 2.0 genes in this pathway |
| RAFFEL VEGFA TARGETS UP | 9 | 8 | All SZGR 2.0 genes in this pathway |
| PEDERSEN METASTASIS BY ERBB2 ISOFORM 7 | 403 | 240 | All SZGR 2.0 genes in this pathway |
| HUANG GATA2 TARGETS DN | 72 | 52 | All SZGR 2.0 genes in this pathway |
| PLASARI TGFB1 TARGETS 10HR DN | 244 | 157 | All SZGR 2.0 genes in this pathway |
| FORTSCHEGGER PHF8 TARGETS DN | 784 | 464 | All SZGR 2.0 genes in this pathway |
| PHONG TNF RESPONSE VIA P38 COMPLETE | 227 | 151 | All SZGR 2.0 genes in this pathway |
| ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY | 1839 | 928 | All SZGR 2.0 genes in this pathway |