基因Page:SEMA3B

Summary?
基因ID 7869
Symbol SEMA3B
Synonyms LUCA-1|SEMA5|SEMAA|SemA|semaV
Description semaphorin 3B
Reference MIM:601281|HGNC:HGNC:10724|Ensembl:ENSG00000012171|HPRD:03179|Vega:OTTHUMG00000156970
基因type protein-coding
Map location 3p21.3
Pascal p-value 0.066
Sherlock p-value 0.438
Fetal beta -1.584
DMG 1 (# studies)
eGene Myers' cis & trans

基因in Data Sources
基因set name Method of gene set Description Info
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). 3
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg18165186 3 50314180 SEMA3B 6.19E-5 0.255 0.023 DMG:Wockner_2014
cg24784036 3 50306878 SEMA3B 2.163E-4 -0.424 0.036 DMG:Wockner_2014
cg09811393 3 50313213 SEMA3B 2.515E-4 0.27 0.037 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene 基因Entrez ID pvalue qvalue TSS distance eQTL type
rs1956962 chr14 37030834 SEMA3B 7869 0.09 trans
rs418682 chr14 37038359 SEMA3B 7869 0.15 trans

Section II. Transcriptome annotation

基因ral gene expression (GTEx)

Not available

基因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.

基因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
基因 Pearson's Correlation Spearman's Correlation
ABAT 0.84 0.86
SLC30A1 0.83 0.81
FAM120A 0.82 0.83
SPRED1 0.82 0.81
ACADSB 0.81 0.80
PTPN11 0.80 0.76
PURA 0.80 0.79
PTPRE 0.79 0.78
APLP2 0.79 0.80
ADAM9 0.79 0.79
Top 10 negatively co-expressed genes
基因 Pearson's Correlation Spearman's Correlation
RP9P -0.45 -0.49
SNHG12 -0.44 -0.51
AL022328.1 -0.44 -0.41
ACSM3 -0.44 -0.42
FAM159B -0.43 -0.54
AC120053.1 -0.43 -0.45
AC135724.1 -0.41 -0.38
RPS21 -0.40 -0.48
IL32 -0.40 -0.32
RPL31 -0.39 -0.47

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0004872 receptor activity IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0007411 axon guidance TAS axon (GO term level: 13) 8633026
GO:0007267 cell-cell signaling TAS 8633026
GO:0007275 multicellular organismal development IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005576 extracellular region IEA -
GO:0005783 endoplasmic reticulum TAS 8633026
GO:0016020 membrane IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG AXON GUIDANCE 129 103 All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS DN 182 111 All SZGR 2.0 genes in this pathway
DOANE BREAST CANCER ESR1 UP 112 72 All SZGR 2.0 genes in this pathway
BORCZUK MALIGNANT MESOTHELIOMA DN 104 59 All SZGR 2.0 genes in this pathway
SENESE HDAC1 AND HDAC2 TARGETS DN 232 139 All SZGR 2.0 genes in this pathway
SENESE HDAC2 TARGETS DN 133 77 All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS DN 536 332 All SZGR 2.0 genes in this pathway
NAGASHIMA NRG1 SIGNALING UP 176 123 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552 347 All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS E UP 97 60 All SZGR 2.0 genes in this pathway
BEGUM TARGETS OF PAX3 FOXO1 FUSION DN 45 34 All SZGR 2.0 genes in this pathway
SHI SPARC TARGETS DN 13 8 All SZGR 2.0 genes in this pathway
MOHANKUMAR TLX1 TARGETS UP 414 287 All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR UP 487 286 All SZGR 2.0 genes in this pathway
KOYAMA SEMA3B TARGETS UP 292 168 All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118 744 All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN 464 276 All SZGR 2.0 genes in this pathway
LE EGR2 TARGETS DN 108 84 All SZGR 2.0 genes in this pathway
ZUCCHI METASTASIS DN 44 29 All SZGR 2.0 genes in this pathway
STOSSI RESPONSE TO ESTRADIOL 50 35 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT UP 390 242 All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN 830 547 All SZGR 2.0 genes in this pathway
MACLACHLAN BRCA1 TARGETS DN 16 12 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE UP 1691 1088 All SZGR 2.0 genes in this pathway
LU AGING BRAIN UP 262 186 All SZGR 2.0 genes in this pathway
NIELSEN SCHWANNOMA UP 18 16 All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434 302 All SZGR 2.0 genes in this pathway
WANG CISPLATIN RESPONSE AND XPC UP 202 115 All SZGR 2.0 genes in this pathway
DURCHDEWALD SKIN CARCINOGENESIS UP 88 47 All SZGR 2.0 genes in this pathway
CREIGHTON ENDOCRINE THERAPY RESISTANCE 1 528 324 All SZGR 2.0 genes in this pathway
SANSOM APC MYC TARGETS 217 138 All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS REQUIRE MYC 210 123 All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE BY GAMMA RADIATION 81 59 All SZGR 2.0 genes in this pathway
KYNG DNA DAMAGE DN 195 135 All SZGR 2.0 genes in this pathway
李转移和可变剪接DN 45 31 All SZGR 2.0 genes in this pathway
SARRIO EPITHELIAL MESENCHYMAL TRANSITION DN 154 101 All SZGR 2.0 genes in this pathway
AMBROSINI FLAVOPIRIDOL TREATMENT TP53 109 63 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP 973 570 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER RELAPSE IN BONE UP 97 61 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER LUMINAL B UP 172 109 All SZGR 2.0 genes in this pathway
SMID BREAST CANCER BASAL DN 701 446 All SZGR 2.0 genes in this pathway
LABBE WNT3A TARGETS DN 97 53 All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN 546 362 All SZGR 2.0 genes in this pathway
HUPER BREAST BASAL VS LUMINAL DN 59 44 All SZGR 2.0 genes in this pathway
YAUCH HEDGEHOG SIGNALING PARACRINE DN 264 159 All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210 725 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS DN 457 302 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 15 35 23 All SZGR 2.0 genes in this pathway
BAE BRCA1 TARGETS DN 32 27 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
BHAT西文R1 TARGETS NOT VIA AKT1 UP 211 131 All SZGR 2.0 genes in this pathway
BHAT西文R1 TARGETS VIA AKT1 UP 281 183 All SZGR 2.0 genes in this pathway
ISSAEVA MLL2 TARGETS 62 35 All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 1HR DN 106 77 All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS DN 784 464 All SZGR 2.0 genes in this pathway
ZHOU CELL CYCLE GENES IN IR RESPONSE 2HR 8 5 All SZGR 2.0 genes in this pathway
ZHOU CELL CYCLE GENES IN IR RESPONSE 6HR 85 49 All SZGR 2.0 genes in this pathway
ZHOU CELL CYCLE GENES IN IR RESPONSE 24HR 128 73 All SZGR 2.0 genes in this pathway
NABA ECM附属 171 89 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-27 354 360 1A hsa-miR-27abrain UUCACAGUGGCUAAGUUCCGC
hsa-miR-27bbrain UUCACAGUGGCUAAGUUCUGC