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Clinical

Dataset with samples from Individuals with defects in Intrinsic and Innate Immunity:

1)- Herpes simplex encephalitis (HSE):

- TLR3 deficiency, Phenotype OMIM number 613002

- TRIF deficiency, Phenotype OMIM number 614850

2)- TLR signaling pathway deficiency:

- MyD88 deficiency, Phenotype OMIM number 612260

Purpose

We report here unrelated HSE patients with autosomal recessive (AR) or autosomal dominant (AD) TRIF deficiency. The AR form of the disease is due to a homozygous nonsense mutation, resulting in a complete absence of the TRIF protein. Both the TLR3 and the TRIF-dependent TLR4 signaling pathways are abolished. The AD form of TRIF deficiency is due to a heterozygous missense mutation resulting in a dysfunctional protein. The TLR3 signaling pathway is impaired, whereas the TRIF-dependent TLR4 pathway is unaffected. Both patients however showed reduced capacity to respond to cytosolic double stranded RNA, consistent with recent reports of TRIF’s involvement in the DExD/H-box helicases pathway.

Hypothesis

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Experimental Design

Skin fibroblast cell lines were derived from healthy controls (n=3), patient with deficiencies for TRIF (n=1), MYD88 (n=1), and TLR3 (n=1) and cultured for 4 hours in the presence of IL1B (20ng/ml) or poly I:C (25ng/ml) or left unstimulated for the same length of time.PBMCs (previously frozen) collected from a healthy control (n=1) and patients with deficiencies for TRIF (n=1), and MYD88 (n=1) were cultured together with LPS (10ng/ml) or R848 (3ug/ml) for 2hrs or left unstimulated for the same length of time.

Experimental Variables

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Controls

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Methods

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Additional Information

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Microarray
Illumina HumanHT-12 v4
27 Samples Loaded: 27
Human (Homo sapiens)
Fibroblast , PBMC
TRIF deficiency
Sample Set Spreadsheet
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Samples Preview
Sample ID !Sample Title group Cell type treatment concentration
GSM801667 Fibroblasts C3 PIC Fibroblasts Ctrl PIC Fibroblasts Poly I:C 25ng/ml
GSM801668 Fibroblasts P1TRIF-/- IL1B Fibroblasts AR TRIF IL1B Fibroblasts IL1B 20ng/ml
GSM801669 Fibroblasts C1 IL1B Fibroblasts Ctrl IL1B Fibroblasts IL1B 20ng/ml
GSM801670 Fibroblasts C3 IL1B Fibroblasts Ctrl IL1B Fibroblasts IL1B 20ng/ml
GSM801671 Fibroblasts TLR3-/- NS Fibroblasts AR TLR3 NS Fibroblasts Non stimulated
Please log in in order to upload files.
File
sampleset4000030_sampleannotations_Group.csv
Sample Set Spreadsheet
sampleset4000030_sampleannotations_Group.csv
Sample Set Spreadsheet
sampleset4000030_sampleannotations_Group.csv
Sample Set Spreadsheet
Raw Signal
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Samples Viewer / Editor

All fields are editable except the "Sample ID" column. To edit a cell, click within the cell. To edit a "date" cell, click on the calendar icon. To cancel an edit, press the ESC key.

Sample ID !Sample Title Group Cell type Treatment Concentration Disease state Time point
GSM801667
Fibroblasts C3 PIC
Fibroblasts Ctrl PIC
Fibroblasts
Poly I:C
25ng/ml
healthy control
4hrs
GSM801668
Fibroblasts P1TRIF-/- IL1B
Fibroblasts AR TRIF IL1B
Fibroblasts
IL1B
20ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TRIF deficient patient
4hrs
GSM801669
Fibroblasts C1 IL1B
Fibroblasts Ctrl IL1B
Fibroblasts
IL1B
20ng/ml
healthy control
4hrs
GSM801670
Fibroblasts C3 IL1B
Fibroblasts Ctrl IL1B
Fibroblasts
IL1B
20ng/ml
healthy control
4hrs
GSM801671
Fibroblasts TLR3-/- NS
Fibroblasts AR TLR3 NS
Fibroblasts
Non stimulated
 
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TLR3 deficient patient
4hrs
GSM801672
Fibroblasts MYD88-/- IL1B
Fibroblasts AR MyD88 IL1B
Fibroblasts
IL1B
20ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) MYD88 deficient patient
4hrs
GSM801673
Fibroblasts MYD88-/- NS
Fibroblasts AR MyD88 NS
Fibroblasts
NS
 
herpes simplex virus type 1 (HSV1) encephalitis (HSE) MYD88 deficient patient
4hrs
GSM801674
Fibroblasts C1 PIC
Fibroblasts Ctrl PIC
Fibroblasts
Poly I:C
25ng/ml
healthy control
4hrs
GSM801675
Fibroblasts P1TRIF-/- NS
Fibroblasts AR TRIF NS
Fibroblasts
Non stimulated
 
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TRIF deficient patient
4hrs
GSM801676
Fibroblasts TLR3-/- IL1B
Fibroblasts AR TLR3 IL1B
Fibroblasts
IL1B
20ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TLR3 deficient patient
4hrs
GSM801677
Fibroblasts C3 NS
Fibroblasts Ctrl NS
Fibroblasts
Non stimulated
 
healthy control
4hrs
GSM801678
Fibroblasts C2 IL1B
Fibroblasts Ctrl IL1B
Fibroblasts
IL1B
20ng/ml
healthy control
4hrs
GSM801679
Fibroblasts TLR3 PIC
Fibroblasts TLR3 PIC
Fibroblasts
Poly I:C
25ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TLR3 deficient patient
4hrs
GSM801680
Fibroblasts C2 NS
Fibroblasts Ctrl NS
Fibroblasts
Non stimulated
 
healthy control
4hrs
GSM801681
Fibroblasts C1 NS
Fibroblasts Ctrl NS
Fibroblasts
Non stimulated
 
healthy control
4hrs
GSM801682
Fibroblasts MYD88-/- PIC
Fibroblasts AR MyD88 PIC
Fibroblasts
Poly I:C
25ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) MYD88 deficient patient
4hrs
GSM801683
Fibroblasts P1TRIF-/- PIC
Fibroblasts AR TRIF PIC
Fibroblasts
Poly I:C
25ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TRIF deficient patient
4hrs
GSM801684
Fibroblasts C2-/- PIC
Fibroblasts Ctrl PIC
Fibroblasts
Poly I:C
25ng/ml
healthy control
4hrs
GSM801685
PBMC Ctrl LPS
PBMC Ctrl LPS
PBMC
LPS
10ng/ml
healthy control
2hrs
GSM801686
PBMC TRIF-/- LPS
PBMC AR TRIFLPS
PBMC
LPS
10ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TRIF deficient patient
2hrs
GSM801687
PBMC MYD88-/- LPS
PBMC AR MyD88 LPS
PBMC
LPS
10ng/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) MYD88 deficient patient
2hrs
GSM801688
PBMC Ctrl NS
PBMC Ctrl NS
PBMC
Non stimulated
 
healthy control
2hrs
GSM801689
PBMC TRIF-/- NS
PBMC AR TRIF NS
PBMC
Non stimulated
 
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TRIF deficient patient
2hrs
GSM801690
PBMC MYD88-/- NS
PBMC AR MyD88 NS
PBMC
Non stimulated
 
herpes simplex virus type 1 (HSV1) encephalitis (HSE) MYD88 deficient patient
2hrs
GSM801691
PBMC Ctrl R848
PBMC Ctrl R848
PBMC
R848
3ug/ml
healthy control
2hrs
GSM801692
PBMC TRIF-/- R848
PBMC AR TRIF R848
PBMC
R848
3ug/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) TRIF deficient patient
2hrs
GSM801693
PBMC MYD88-/- R848
PBMC AR MyD88 R848
PBMC
R848
3ug/ml
herpes simplex virus type 1 (HSV1) encephalitis (HSE) MYD88 deficient patient
2hrs

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