Gene Page:CXCL12

Summary?
GeneID 6387
Symbol CXCL12
Synonyms IRH|PBSF|SCYB12|SDF1|TLSF|TPAR1
Description C-X-C motif chemokine ligand 12
Reference MIM:600835|HGNC:HGNC:10672|Ensembl:ENSG00000107562|HPRD:02904|Vega:OTTHUMG00000018054
Gene type protein-coding
Map location 10q11.1
Pascal p-value 0.121
Sherlock p-value 0.257
Fetal beta 1.121

Gene in Data Sources
Gene set name Method of gene set Description Info
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
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Expression Meta-analysis of gene expression Pvalue: 1.804
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation


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
LTBP1 0.86 0.67
JUB 0.82 0.59
NOTCH1 0.82 0.59
CDC20 0.81 0.49
CDK2 0.81 0.39
PLK1 0.81 0.52
TGIF2 0.81 0.50
PALLD 0.80 0.64
TYMS 0.80 0.61
UBE2C 0.80 0.35
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
MT-CO2 -0.28 -0.41
AF347015.31 -0.28 -0.38
AF347015.33 -0.27 -0.37
AF347015.27 -0.27 -0.38
MT-CYB -0.27 -0.38
AF347015.8 -0.26 -0.38
AF347015.15 -0.26 -0.38
AF347015.2 -0.25 -0.35
C5orf53 -0.25 -0.20
HLA-F -0.25 -0.21

Section III. Gene Ontology annotation

Molecular function GO term Evidence Neuro keywords PubMed ID
GO:0004871 signal transducer activity TAS 10491003|10802710
GO:0008083 growth factor activity IEA -
GO:0008009 chemokine activity IEA -
GO:0008009 chemokine activity TAS 10772939
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0007186 G-protein coupled receptor protein signaling pathway TAS 8752280
GO:0007155 cell adhesion TAS 10198043
GO:0007165 signal transduction TAS 10491003
GO:0009615 response to virus TAS 10772939
GO:0008064 regulation of actin polymerization or depolymerization TAS 10570282
GO:0008015 blood circulation TAS 10772939
GO:0006955 immune response IEA -
GO:0006955 immune response TAS 10802710
GO:0006935 chemotaxis TAS 10620615
GO:0006874 cellular calcium ion homeostasis TAS 10772939
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005576 extracellular region IEA -
GO:0005615 extracellular space IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG CYTOKINE CYTOKINE RECEPTOR INTERACTION 267 161 All SZGR 2.0 genes in this pathway
KEGG CHEMOKINE SIGNALING PATHWAY 190 128 All SZGR 2.0 genes in this pathway
KEGG AXON GUIDANCE 129 103 All SZGR 2.0 genes in this pathway
KEGG LEUKOCYTE TRANSENDOTHELIAL MIGRATION 118 78 All SZGR 2.0 genes in this pathway
KEGG INTESTINAL IMMUNE NETWORK FOR IGA PRODUCTION 48 36 All SZGR 2.0 genes in this pathway
BIOCARTA CXCR4 PATHWAY 24 22 All SZGR 2.0 genes in this pathway
BIOCARTA CCR5 PATHWAY 20 16 All SZGR 2.0 genes in this pathway
PID CXCR4 PATHWAY 102 78 All SZGR 2.0 genes in this pathway
PID SYNDECAN 4通道 32 25 All SZGR 2.0 genes in this pathway
PID HIF1 TFPATHWAY 66 52 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY ERBB4 90 67 All SZGR 2.0 genes in this pathway
REACTOME NUCLEAR SIGNALING BY ERBB4 38 30 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY GPCR 920 449 All SZGR 2.0 genes in this pathway
REACTOME PEPTIDE LIGAND BINDING RECEPTORS 188 108 All SZGR 2.0 genes in this pathway
REACTOME CLASS A1 RHODOPSIN LIKE RECEPTORS 305 177 All SZGR 2.0 genes in this pathway
REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES 57 27 All SZGR 2.0 genes in this pathway
REACTOME GPCR DOWNSTREAM SIGNALING 805 368 All SZGR 2.0 genes in this pathway
REACTOME G ALPHA I SIGNALLING EVENTS 195 114 All SZGR 2.0 genes in this pathway
REACTOME GPCR LIGAND BINDING 408 246 All SZGR 2.0 genes in this pathway
PICCALUGA ANGIOIMMUNOBLASTIC LYMPHOMA UP 205 140 All SZGR 2.0 genes in this pathway
THUM SYSTOLIC HEART FAILURE UP 423 283 All SZGR 2.0 genes in this pathway
CORRE MULTIPLE MYELOMA DN 62 41 All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY DN 367 220 All SZGR 2.0 genes in this pathway
SABATES COLORECTAL ADENOMA DN 291 176 All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA DN 146 94 All SZGR 2.0 genes in this pathway
ELVIDGE HYPOXIA BY DMOG DN 59 40 All SZGR 2.0 genes in this pathway
ELVIDGE HIF1A TARGETS UP 67 40 All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN 805 505 All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781 465 All SZGR 2.0 genes in this pathway
LANDIS BREAST CANCER PROGRESSION DN 70 43 All SZGR 2.0 genes in this pathway
DELYS THYROID CANCER DN 232 154 All SZGR 2.0 genes in this pathway
CHIARADONNA NEOPLASTIC TRANSFORMATION KRAS CDC25 DN 51 35 All SZGR 2.0 genes in this pathway
CHEBOTAEV GR TARGETS DN 120 73 All SZGR 2.0 genes in this pathway
MARKEY RB1 CHRONIC LOF UP 115 78 All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 65 DN 37 22 All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST PRENEOPLASTIC DN 55 33 All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS A UP 191 128 All SZGR 2.0 genes in this pathway
LANDIS ERBB2 BREAST TUMORS 324 DN 149 93 All SZGR 2.0 genes in this pathway
BERENJENO TRANSFORMED BY RHOA DN 394 258 All SZGR 2.0 genes in this pathway
MAHADEVAN IMATINIB RESISTANCE DN 20 11 All SZGR 2.0 genes in this pathway
WONG ENDMETRIUM CANCER DN 82 53 All SZGR 2.0 genes in this pathway
HAEGERSTRAND RESPONSE TO IMATINIB 9 5 All SZGR 2.0 genes in this pathway
LINDGREN BLADDER CANCER CLUSTER 2B 392 251 All SZGR 2.0 genes in this pathway
MATTIOLI MULTIPLE MYELOMA WITH 14Q32 TRANSLOCATIONS 36 25 All SZGR 2.0 genes in this pathway
XU HGF TARGETS INDUCED BY AKT1 48HR DN 27 17 All SZGR 2.0 genes in this pathway
DACOSTA ERCC3 ALLELE XPCS VS TTD UP 28 19 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855 609 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 COMMON DN 483 336 All SZGR 2.0 genes in this pathway
GRUETZMANN PANCREATIC CANCER DN 203 134 All SZGR 2.0 genes in this pathway
SASAI RESISTANCE TO NEOPLASTIC TRANSFROMATION 50 31 All SZGR 2.0 genes in this pathway
HOWLIN PUBERTAL MAMMARY GLAND 69 40 All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390 236 All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM4 261 153 All SZGR 2.0 genes in this pathway
SCHLESINGER METHYLATED DE NOVO IN CANCER 88 64 All SZGR 2.0 genes in this pathway
WILLIAMS ESR1 TARGETS UP 26 16 All SZGR 2.0 genes in this pathway
GROSS ELK3 TARGETS UP 27 16 All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA ELK3 UP 209 139 All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA HIF1A DN 110 78 All SZGR 2.0 genes in this pathway
MANTOVANI NFKB TARGETS UP 43 33 All SZGR 2.0 genes in this pathway
MANTOVANI VIRAL GPCR SIGNALING UP 86 54 All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 12HR DN 57 45 All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062 725 All SZGR 2.0 genes in this pathway
UEDA CENTRAL CLOCK 88 62 All SZGR 2.0 genes in this pathway
FRASOR RESPONSE TO ESTRADIOL UP 37 28 All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS PLASMABLAST UP 398 262 All SZGR 2.0 genes in this pathway
TENEDINI MEGAKARYOCYTE MARKERS 66 48 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
ABRAHAM ALPC VS MULTIPLE MYELOMA UP 26 22 All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA MF UP 47 27 All SZGR 2.0 genes in this pathway
PETROVA ENDOTHELIUM LYMPHATIC VS BLOOD UP 131 87 All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA DN 41 27 All SZGR 2.0 genes in this pathway
CHEN LVAD SUPPORT OF FAILING HEART DN 42 32 All SZGR 2.0 genes in this pathway
PAL PRMT5 TARGETS UP 203 135 All SZGR 2.0 genes in this pathway
DELASERNA MYOD TARGETS DN 57 42 All SZGR 2.0 genes in this pathway
布朗感染48小时血巨细胞病毒DN 504 323 All SZGR 2.0 genes in this pathway
GERHOLD ADIPOGENESIS DN 64 44 All SZGR 2.0 genes in this pathway
ZHU CMV 24 HR DN 91 64 All SZGR 2.0 genes in this pathway
CHEN ETV5 TARGETS SERTOLI 20 10 All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D6 37 25 All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN 312 203 All SZGR 2.0 genes in this pathway
MCLACHLAN DENTAL CARIES DN 245 144 All SZGR 2.0 genes in this pathway
ZHU CMV ALL DN 128 93 All SZGR 2.0 genes in this pathway
LIANG SILENCED BY METHYLATION DN 11 7 All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1 419 273 All SZGR 2.0 genes in this pathway
MCDOWELL ACUTE LUNG INJURY DN 48 33 All SZGR 2.0 genes in this pathway
GENTILE UV LOW DOSE DN 67 46 All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 9 92 59 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 12HR DN 101 64 All SZGR 2.0 genes in this pathway
MCLACHLAN DENTAL CARIES UP 253 147 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 4 307 185 All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS RESPONSIVE TO ESTROGEN UP 31 20 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN 543 317 All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS UP 602 364 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601 369 All SZGR 2.0 genes in this pathway
MASSARWEH TAMOXIFEN RESISTANCE DN 258 160 All SZGR 2.0 genes in this pathway
MASSARWEH RESPONSE TO ESTRADIOL 61 47 All SZGR 2.0 genes in this pathway
MARZEC IL2 SIGNALING UP 115 80 All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D UP 210 124 All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR DN 191 123 All SZGR 2.0 genes in this pathway
乳腺癌萧述三腔的B DN 564 326 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER NORMAL LIKE UP 476 285 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701 446 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL UP 260 174 All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN 546 362 All SZGR 2.0 genes in this pathway
RAY TUMORIGENESIS BY ERBB2 CDC25A DN 159 105 All SZGR 2.0 genes in this pathway
ALONSO METASTASIS UP 198 128 All SZGR 2.0 genes in this pathway
VART KSHV INFECTION ANGIOGENIC MARKERS UP 165 118 All SZGR 2.0 genes in this pathway
MIZUKAMI HYPOXIA UP 12 12 All SZGR 2.0 genes in this pathway
RUIZ TNC TARGETS UP 153 107 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN 435 289 All SZGR 2.0 genes in this pathway
HOFMANN MYELODYSPLASTIC SYNDROM RISK DN 23 12 All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME3 AND H3K27ME3 142 103 All SZGR 2.0 genes in this pathway
MEISSNER BRAIN HCP WITH H3K4ME3 AND H3K27ME3 1069 729 All SZGR 2.0 genes in this pathway
TAVAZOIE METASTASIS 108 68 All SZGR 2.0 genes in this pathway
ZHAN V1 LATE DIFFERENTIATION GENES UP 32 25 All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS CTNNB1 DN 170 105 All SZGR 2.0 genes in this pathway
COULOUARN TEMPORAL TGFB1 SIGNATURE DN 138 99 All SZGR 2.0 genes in this pathway
NAKAYAMA FGF2 TARGETS 29 17 All SZGR 2.0 genes in this pathway
STEIN ESR1 TARGETS 85 55 All SZGR 2.0 genes in this pathway
STEIN ESRRA TARGETS 535 325 All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721 492 All SZGR 2.0 genes in this pathway
MIKKELSEN NPC HCP WITH H3K4ME3 AND H3K27ME3 210 148 All SZGR 2.0 genes in this pathway
NAKAMURA ADIPOGENESIS LATE DN 38 25 All SZGR 2.0 genes in this pathway
GERHOLD RESPONSE TO TZD DN 13 11 All SZGR 2.0 genes in this pathway
LI INDUCED T TO NATURAL KILLER DN 116 83 All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS GROWING 243 155 All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT 567 365 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
KIM GLIS2 TARGETS UP 84 61 All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745 475 All SZGR 2.0 genes in this pathway
KATSANOU ELAVL1 TARGETS UP 169 105 All SZGR 2.0 genes in this pathway
SERVITJA ISLET HNF1A TARGETS UP 163 111 All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN 418 245 All SZGR 2.0 genes in this pathway
DURAND STROMA S UP 297 194 All SZGR 2.0 genes in this pathway
NABA SECRETED FACTORS 344 197 All SZGR 2.0 genes in this pathway
NABA MATRISOME ASSOCIATED 753 411 All SZGR 2.0 genes in this pathway
NABA MATRISOME 1028 559 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 2959 2965 1A hsa-miR-101 UACAGUACUGUGAUAACUGAAG
miR-141/200a 2940 2947 1A,m8 hsa-miR-141 UAACACUGUCUGGUAAAGAUGG
hsa-miR-200a UAACACUGUCUGGUAACGAUGU
hsa-miR-141 UAACACUGUCUGGUAAAGAUGG
hsa-miR-200a UAACACUGUCUGGUAACGAUGU
miR-144 2958 2965 1A,m8 hsa-miR-144 UACAGUAUAGAUGAUGUACUAG
miR-23 2997 3004 1A,m8 hsa-miR-23abrain AUCACAUUGCCAGGGAUUUCC
hsa-miR-23bbrain AUCACAUUGCCAGGGAUUACC
miR-323 2996 3003 1A,m8 hsa-miR-323brain GCACAUUACACGGUCGACCUCU
miR-421 560 566 1A hsa-miR-421 GGCCUCAUUAAAUGUUUGUUG