SDC1

Name	Synonyms	Full Name	RefSeq ID	Description (.pdf)	IGV-img (human_genome)	Sashimi-img (human_genome)	UCSC-img (human_genome)	IGV-img (bat_genome)
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.

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

Source	Species	Mapping on	Mock_3h	Mock_7h	Mock_23h	EBOV_3h	EBOV_7h	EBOV_23h	MARV_3h	MARV_7h	MARV_23h
Read_Max	H. sapiens	Genome	530	443	492	465	522	115	545	578	486
Read_Max	R. aegyptiacus	Transcriptome	718	657	297	465	422	340	518	564	595
Read_Max	R. aegyptiacus	Genome	769	522	272	605	425	197	452	719	598
DESeq	H. sapiens	Genome	7783.4	6393.56	6710.51	7332.17	5589.22	1511.68	6947.58	6311.07	7284.05
DESeq	R. aegyptiacus	Transcriptome	3532.95	3777.9	2080.06	2856.05	2832.9	1710.2	3191.38	2465.58	2529.78
DESeq	R. aegyptiacus	Genome	5206.18	3993.91	3021.53	5988.1	4279.26	2835.35	5013.16	3683.23	3883.69

Human Condition Comparisons

	Mock	EBOV	MARV	FC_{Mock_EBOV}	FC_{Mock_MARV}	FC_{EBOV_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

	3h	7h	23h	FC_{3h_7h}	FC_{3h_23h}	FC_{7h_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

	Mock	EBOV	MARV	FC_{Mock_EBOV}	FC_{Mock_MARV}	FC_{EBOV_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

	3h	7h	23h	FC_{3h_7h}	FC_{3h_23h}	FC_{7h_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

Differential transcriptional responses to Ebola and Marburg virus infection in cells from bats and humans

Supplemental Material