SDC2

NameSynonymsFull NameRefSeq IDDescription (.pdf)IGV-img (humangenome)Sashimi-img (humangenome)UCSC-img (humangenome)IGV-img (batgenome)
SDC2 B3KQA3, HSPG1,fibroglycan, SYND2, CD362 syndecan 2 NM_002998 pdf

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

Description

The protein encoded by this gene (SDC2) 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-2 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-2 expression has been detected in several different tumor types.

This gene is equally expressed within the wildtype probe, whereas for the virus infected cells a downregulation in the 23 h samples takes place. In the Ebola infected ones it was most significant with a 5x downregulation.

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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. sapiensGenome591 564 546 582 624 146 713 621 355
Read_Max
batR. aegyptiacusTranscriptome 532 468 365 454 353 205 366 498 411
Read_Max
bat_genomeR. aegyptiacusGenome 759 609 432 733 392 174 454 743 655
DESeq
humanH. sapiensGenome 5097.26 4731.17 5714.71 5251.56 5164.05 970.83 4927.38 4422.21 3865.43
DESeq
batR. aegyptiacusTranscriptome 2238.29 2347.38 2462.4 2269.11 2339.02 1212.32 2482.78 2457.32 2045.19
DESeq
bat_genomeR. aegyptiacusGenome 5784.55 5761.78 5930.36 6379.14 6108.6 3096.43 6750.57 5972.47 5435.1

Human Condition Comparisons

human Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h 5097.26 5251.56 4927.38 0.04 -0.05 -0.09
7h 4731.17 5164.05 4422.21 0.13 -0.1 -0.22
23h 5714.71 970.83 3865.43 -2.56 -0.56 1.99

Human Time Point Comparisons

human 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock 5097.26 4731.17 5714.71 -0.11 0.16 0.27
Ebov 5251.56 5164.05 970.83 -0.02 -2.44 -2.41
Marv 4927.38 4422.21 3865.43 -0.16 -0.35 -0.19

Bat Condition Comparisons

bat Mock EBOV MARV FCMock_EBOV FCMock_MARV FCEBOV_MARV
3h 2238.29 2269.11 2482.78 0.02 0.15 0.13
7h 2347.38 2339.02 2457.32 -0.01 0.07 0.07
23h 2462.4 1212.32 2045.19 -1.02 -0.27 0.75

Bat Time Point Comparisons

bat 3h 7h 23h FC3h_7h FC3h_23h FC7h_23h
Mock 2238.29 2347.38 2462.4 0.07 0.14 0.07
Ebov 2269.11 2339.02 1212.32 0.04 -0.9 -0.95
Marv 2482.78 2457.32 2045.19 -0.01 -0.28 -0.26