Gene Page:LTB

Summary?
GeneID 4050
Symbol LTB
Synonyms TNFC|TNFSF3|TNLG1C|p33
Description lymphotoxin beta
Reference MIM:600978|HGNC:HGNC:6711|Ensembl:ENSG00000227507|HPRD:02987|Vega:OTTHUMG00000031136
Gene type protein-coding
Map location 6p21.3
Pascal p-value 1.256E-10
Fetal beta -1.342
DMG 1 (# studies)

Gene in Data Sources
Gene set name Method of gene set Description Info
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). 1
GSMA_I Genome scan meta-analysis Psr: 0.033

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg14868222 6 31548340 LTB 4.35E-4 0.274 0.045 DMG:Wockner_2014


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.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular function GO term Evidence Neuro keywords PubMed ID
GO:0005125 cytokine activity IEA -
GO:0005164 tumor necrosis factor receptor binding IEA -
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0007267 cell-cell signaling TAS 7916655
GO:0007165 信号转导 TAS 7916655
GO:0006955 immune response IEA -
GO:0045084 positive regulation of interleukin-12 biosynthetic process ISS -
GO:0048535 lymph node development IEA -
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005575 cellular_component ND 9299492
GO:0005615 extracellular space IEA -
GO:0016020 membrane IEA -
GO:0016021 integral to membrane 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
GARY CD5 TARGETS DN 431 263 All SZGR 2.0 genes in this pathway
OSMAN BLADDER CANCER DN 406 230 All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION HSC DN 187 115 All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION MONOCYTE DN 54 38 All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION SUSTAINED IN MONOCYTE DN 8 7 All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS UP 457 269 All SZGR 2.0 genes in this pathway
SENESE HDAC1 AND HDAC2 TARGETS UP 238 144 All SZGR 2.0 genes in this pathway
GRAHAM CML DIVIDING VS NORMAL DIVIDING DN 10 6 All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE UP 134 93 All SZGR 2.0 genes in this pathway
XU HGF SIGNALING NOT VIA AKT1 48HR UP 35 20 All SZGR 2.0 genes in this pathway
BORLAK LIVER CANCER EGF UP 57 41 All SZGR 2.0 genes in this pathway
SHETH LIVER CANCER VS TXNIP LOSS PAM3 70 37 All SZGR 2.0 genes in this pathway
SPIELMAN LYMPHOBLAST EUROPEAN VS ASIAN UP 479 299 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
SHIN B CELL LYMPHOMA CLUSTER 3 28 23 All SZGR 2.0 genes in this pathway
MORI LARGE PRE BII LYMPHOCYTE DN 58 39 All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN 464 276 All SZGR 2.0 genes in this pathway
不知道背景目标1 140 85 All SZGR 2.0 genes in this pathway
TARTE PLASMA CELL VS B LYMPHOCYTE DN 38 25 All SZGR 2.0 genes in this pathway
FERNANDEZ BOUND BY MYC 182 116 All SZGR 2.0 genes in this pathway
FLECHNER PBL KIDNEY TRANSPLANT REJECTED VS OK DN 51 35 All SZGR 2.0 genes in this pathway
ALCALAY AML BY NPM1 LOCALIZATION UP 140 83 All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA SPIKED 22 13 All SZGR 2.0 genes in this pathway
NEMETH INFLAMMATORY RESPONSE LPS UP 88 64 All SZGR 2.0 genes in this pathway
YU MYC TARGETS DN 55 38 All SZGR 2.0 genes in this pathway
BASSO CD40 SIGNALING DN 68 44 All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN 225 163 All SZGR 2.0 genes in this pathway
HADDAD T LYMPHOCYTE AND NK PROGENITOR DN 63 41 All SZGR 2.0 genes in this pathway
KUMAR TARGETS OF MLL AF9 FUSION 405 264 All SZGR 2.0 genes in this pathway
LEE AGING NEOCORTEX DN 80 49 All SZGR 2.0 genes in this pathway
MCLACHLAN DENTAL CARIES DN 245 144 All SZGR 2.0 genes in this pathway
RODWELL AGING KIDNEY UP 487 303 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
MCLACHLAN DENTAL CARIES UP 253 147 All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED 1022 619 All SZGR 2.0 genes in this pathway
MARSON FOXP3 TARGETS STIMULATED DN 11 9 All SZGR 2.0 genes in this pathway
OSADA ASCL1 TARGETS UP 46 30 All SZGR 2.0 genes in this pathway
ACEVEDO METHYLATED IN LIVER CANCER DN 940 425 All SZGR 2.0 genes in this pathway
乳腺癌萧述三腔的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
LABBE WNT3A TARGETS UP 112 71 All SZGR 2.0 genes in this pathway
BREDEMEYER RAG SIGNALING VIA ATM NOT VIA NFKB UP 49 32 All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA UP 259 185 All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D DN 252 155 All SZGR 2.0 genes in this pathway
BOHN PRIMARY IMMUNODEFICIENCY SYNDROM DN 40 31 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN 435 289 All SZGR 2.0 genes in this pathway
HOFFMANN PRE BI TO LARGE PRE BII LYMPHOCYTE DN 75 61 All SZGR 2.0 genes in this pathway
HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE UP 70 49 All SZGR 2.0 genes in this pathway
LEE DIFFERENTIATING T LYMPHOCYTE 200 115 All SZGR 2.0 genes in this pathway
ZHAN EARLY DIFFERENTIATION GENES DN 42 29 All SZGR 2.0 genes in this pathway
IRITANI MAD1 TARGETS UP 13 8 All SZGR 2.0 genes in this pathway
POOLA INVASIVE BREAST CANCER UP 288 168 All SZGR 2.0 genes in this pathway
WINNEPENNINCKX MELANOMA METASTASIS DN 46 26 All SZGR 2.0 genes in this pathway
KUROZUMI RESPONSE TO ONCOCYTIC VIRUS 44 30 All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA PCA1 UP 101 66 All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC 1103 714 All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721 492 All SZGR 2.0 genes in this pathway
BAUS TFF2 TARGETS UP 32 22 All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS UP 217 131 All SZGR 2.0 genes in this pathway
WIERENGA STAT5A TARGETS GROUP1 136 76 All SZGR 2.0 genes in this pathway
KIM GLIS2 TARGETS UP 84 61 All SZGR 2.0 genes in this pathway
PASINI SUZ12 TARGETS DN 315 215 All SZGR 2.0 genes in this pathway
PEDRIOLI MIR31 TARGETS DN 418 245 All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE NOT VIA P38 337 236 All SZGR 2.0 genes in this pathway
RATTENBACHER BOUND BY CELF1 467 251 All SZGR 2.0 genes in this pathway
GENTLES LEUKEMIC STEM CELL UP 29 15 All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725 838 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

microrna的family Target position microrna的ID microrna的seq
UTR start UTR end Match method
miR-15/16/195/424/497 251 257 m8 hsa-miR-15abrain UAGCAGCACAUAAUGGUUUGUG
hsa-miR-16brain UAGCAGCACGUAAAUAUUGGCG
hsa-miR-15bbrain UAGCAGCACAUCAUGGUUUACA
hsa-miR-195SZ UAGCAGCACAGAAAUAUUGGC
hsa-miR-424 CAGCAGCAAUUCAUGUUUUGAA
hsa-miR-497 CAGCAGCACACUGUGGUUUGU