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| Status |
Public on Dec 01, 2023 |
| Title |
T cell receptor repertoire of the skin of Mycosis fungoides patients |
| Organism |
Homo sapiens |
| Experiment type |
Other
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| Summary |
The skin Microbiome stratifies Patients with CTCL into two subgroups. One subgroup has a balanced microbiome, while the other subgroups has a skin dybiosis with S. aureus outgrowth. This is accompanied by impaired TCR repertoire and poor clinical outcome.
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| Overall design |
20 Patients with Mycosis fungoides were enrolled from two study sites in Germany (Mainz and Frankfurt am Main). From each patient, up to two samples from lesional skin were obtained. Nonlesional skin from the contralateral site of lesional samples served as controls. Whole Metagenome sequencing was performed and taxonomic profiles were generated successfully for a total of N = 65 metagenomic samples. Moreover, in a subset of patients peripheral blood was drawn and skin punch biopsies were obtained from the same lesions. T cell receptor sequencing (TCRseq) was performed on n = 21 samples.
TCRseq libraries were generated from the same RNA extraction as the RNAseq libraries. Samples were taken at the same visit and from the same body site sampled for WMS.
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| Contributor(s) |
Licht P |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Nov 28, 2022 |
| Last update date |
Dec 01, 2023 |
| Contact name |
Philipp Licht |
| E-mail(s) |
plicht@uni-mainz.de
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| Organization name |
University Medical Center Mainz
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| Department |
Dept. of Dermatology
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| Lab |
Mailaender
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| Street address |
Langenbeckstrasse 1
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| City |
Mainz |
| ZIP/Postal code |
55118 |
| Country |
Germany |
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| Platforms (1) |
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| Samples (21)
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| GSM6758070 |
TCRseq from Pat1, blood --> PBMC --> T cell enriched |
| GSM6758071 |
TCRseq from Pat4, blood --> PBMC --> T cell enriched |
| GSM6758072 |
TCRseq from Pat8, blood --> PBMC --> T cell enriched |
| GSM6758073 |
TCRseq from Pat12, blood --> PBMC --> T cell enriched |
| GSM6758074 |
TCRseq from Pat14, blood --> PBMC --> T cell enriched |
| GSM6758075 |
TCRseq from Pat1, skin, Stage: Plaque |
| GSM6758076 |
TCRseq from Pat4, skin, Stage: Plaque |
| GSM6758077 |
TCRseq from Pat4, skin, Stage: nonlesional |
| GSM6758078 |
TCRseq from Pat5, skin, Stage: Patch |
| GSM6758079 |
TCRseq from Pat5, skin, Stage: nonlesional |
| GSM6758080 |
TCRseq from Pat6, skin, Stage: Patch |
| GSM6758081 |
TCRseq from Pat6, skin, Stage: nonlesional |
| GSM6758082 |
TCRseq from Pat7, skin, Stage: Plaque |
| GSM6758083 |
TCRseq from Pat7, skin, Stage: nonlesional |
| GSM6758084 |
TCRseq from Pat8, skin, Stage: Patch |
| GSM6758085 |
TCRseq from Pat9, skin, Stage: Plaque |
| GSM6758086 |
TCRseq from Pat10, skin, Stage: Patch |
| GSM6758087 |
TCRseq from Pat12, skin, Stage: Patch |
| GSM6758088 |
TCRseq from Pat12, skin, Stage: nonlesional |
| GSM6758089 |
TCRseq from Pat14, skin, Stage: Plaque |
| GSM6758090 |
TCRseq from Pat14, skin, Stage: nonlesional |
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| This SubSeries is part of SuperSeries: |
| GSE221150 |
Multi-Omic investigation of the Skin Microbiome of Cutaneous T Cell Lymphoma |
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| Relations |
| BioProject |
PRJNA906070 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE218874_RAW.tar |
2.6 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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