SDC1

NameSynonymsFull NameRefSeq IDDescription (.pdf)IGV-img (humangenome)Sashimi-img (humangenome)UCSC-img (humangenome)IGV-img (batgenome)
SDC1 CD138, syndecan, SYND1 syndecan 1 NM_001006946 pdf NONE

Download all snapshots for IGV, UCSC and Sashimi (zip archive)

Description

The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan and is a member of the syndecan proteoglycan family. The syndecans mediate cell binding, cell signaling, and cytoskeletal organization and syndecan receptors are required for internalization of the HIV-1 tat protein. The syndecan-1 protein functions as an integral membrane protein and participates in cell proliferation, cell migration and cell-matrix interactions via its receptor for extracellular matrix proteins. Altered syndecan-1 expression has been detected in several different tumor types. While several transcript variants may exist for this gene, the full-length natures of only two have been described to date. These two represent the major variants of this gene and encode the same protein.

The gene shows a strong down regulation in human cells Ebola 23 h sample. Also in the bat cells homolog there is a trend in down regulation in the Ebola infected samples.

Show legend

Maximum read counts and DESeq normalized read counts for human and bat cell lines

Source Species Mapping on Mock3h Mock7h Mock23h EBOV3h EBOV7h EBOV23h MARV3h MARV7h MARV23h
Read_Max
humanH. sapiensGenome530 443 492 465 522 115 545 578 486
Read_Max
batR. aegyptiacusTranscriptome 718 657 297 465 422 340 518 564 595
Read_Max
bat_genomeR. aegyptiacusGenome 769 522 272 605 425 197 452 719 598
DESeq
humanH. sapiensGenome 7783.4 6393.56 6710.51 7332.17 5589.22 1511.68 6947.58 6311.07 7284.05
DESeq
batR. aegyptiacusTranscriptome 3532.95 3777.9 2080.06 2856.05 2832.9 1710.2 3191.38 2465.58 2529.78
DESeq
bat_genomeR. aegyptiacusGenome 5206.18 3993.91 3021.53 5988.1 4279.26 2835.35 5013.16 3683.23 3883.69

Human Condition Comparisons

human Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h 7783.4 7332.17 6947.58 -0.09 -0.16 -0.08
7h 6393.56 5589.22 6311.07 -0.19 -0.02 0.18
23h 6710.51 1511.68 7284.05 -2.15 0.12 2.27

Human Time Point Comparisons

human 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock 7783.4 6393.56 6710.51 -0.28 -0.21 0.07
Ebov 7332.17 5589.22 1511.68 -0.39 -2.28 -1.89
Marv 6947.58 6311.07 7284.05 -0.14 0.07 0.21

Bat Condition Comparisons

bat Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h 3532.95 2856.05 3191.38 -0.31 -0.15 0.16
7h 3777.9 2832.9 2465.58 -0.42 -0.62 -0.2
23h 2080.06 1710.2 2529.78 -0.28 0.28 0.56

Bat Time Point Comparisons

bat 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock 3532.95 3777.9 2080.06 0.1 -0.76 -0.86
Ebov 2856.05 2832.9 1710.2 -0.01 -0.74 -0.73
Marv 3191.38 2465.58 2529.78 -0.37 -0.34 0.04