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GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Jul 24, 2024 |
| Title |
Pre-existing skin-resident CD8 and γδ T cell circuits mediate immune response in Merkel cell carcinoma and Predict immunotherapy efficacy [scRNA_tissue] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Merkel Cell Carcinoma (MCC) is an aggressie skin cancer with limiterd treatment and low response rates to Immune Checkpoint Blockade (ICB) therapy. We compiled the largest sc database of MCC tumor samples and matched blood to identify tumor gener modules that Predict ICB response.
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| |
|
| Overall design |
MCC tumor and matched blood samples were used for bulk and single-cell RNA-seq.
**Raw data was deposited in dbGaP (phs003629)**
|
| |
|
| Contributor(s) |
Reinstein ZZ, Zhang Y, Ospina O, Nichols M, Chu V, de Mingo Pulido A, Prieto K, Ngyuen J, Yin R, de Moran Segura C, Usman A, Sell B, Ng S, de la Iglesia J, Chandra S, Sosman J, Cho RJ, Cheng JB, Ivanova EN, Koralov SB, Slebos R, Chung CH, Khushalani NI, Messina JL, Sarnaik AA, Zager JS, Sondak VK, Vaske C, Kim S, Brohl A, Min X, Pierce BG, Fridley B, Tsai KY, Choi J |
| Citation(s) |
39058036 |
| |
| Submission date |
Jun 15, 2023 |
| Last update date |
Nov 01, 2024 |
| Contact name |
Jaehyuk Choi |
| E-mail(s) |
jaehyuk.choi@northwestern.edu
|
| Organization name |
Northwestern University
|
| Department |
Dermatology
|
| Lab |
Choi
|
| Street address |
303 E. Superior St. 5-220
|
| City |
Chicago |
| State/province |
Illinois |
| ZIP/Postal code |
60611 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
|
| Samples (192)
|
| GSM7494650 |
MO_MCC_057, lymph node - ADT |
| GSM7494651 |
MO_MCC_057, lymph node - ab VDJ |
| GSM7494652 |
MO_MCC_057, lymph node - gd VDJ |
| GSM7494653 |
MO_MCC_059, lymph node - RNA |
| GSM7494654 |
MO_MCC_059, lymph node - ADT |
| GSM7494655 |
MO_MCC_059, lymph node - ab VDJ |
| GSM7494656 |
MO_MCC_059, lymph node - gd VDJ |
| GSM7494657 |
MO_MCC_061, skin - RNA |
| GSM7494658 |
MO_MCC_061, skin - ab VDJ |
| GSM7494659 |
MO_MCC_066, skin - RNA |
| GSM7494660 |
MO_MCC_066, skin - ab VDJ |
| GSM7494661 |
MMO_MCC_068skin_RNA,skin |
| GSM7494662 |
MMO_MCC_068skin_ADT,skin |
| GSM7494663 |
MMO_MCC_068skin_abVDJ,skin |
| GSM7494664 |
MO_MCC_068skin_gdVDJ,skin |
| GSM7494665 |
MO_MCC_068LN_RNA,skin |
| GSM7494666 |
MO_MCC_068LN_ADT,skin |
| GSM7494667 |
MO_MCC_068LN_abVDJ,skin |
| GSM7494668 |
MO_MCC_068LN_gdVDJ,skin |
| GSM7494669 |
MO_MCC_069, skin - RNA |
| GSM7494670 |
MO_MCC_069, skin - ADT |
| GSM7494671 |
MO_MCC_069, skin - ab VDJ |
| GSM7494672 |
MO_MCC_069, skin - gd VDJ |
| GSM7494673 |
MO_MCC_071, skin - RNA |
| GSM7494674 |
MO_MCC_071, skin - ADT |
| GSM7494675 |
MO_MCC_071, skin - ab VDJ |
| GSM7494676 |
MO_MCC_071, skin - gd VDJ |
| GSM7494677 |
MO_MCC_072, skin - RNA |
| GSM7494678 |
MO_MCC_072, skin - ADT |
| GSM7494679 |
MO_MCC_072, skin - ab VDJ |
| GSM7494680 |
MO_MCC_072, skin - gd VDJ |
| GSM7494681 |
MO_MCC_073, skin - RNA |
| GSM7494682 |
MO_MCC_073, skin - ADT |
| GSM7494683 |
MO_MCC_073, skin - ab VDJ |
| GSM7494684 |
MO_MCC_073, skin - gd VDJ |
| GSM7494685 |
MO_MCC_074, skin - RNA |
| GSM7494686 |
MO_MCC_074, skin - ADT |
| GSM7494687 |
MO_MCC_074, skin - ab VDJ |
| GSM7494688 |
MO_MCC_074, skin - gd VDJ |
| GSM7494689 |
MO_MCC_075, skin - RNA |
| GSM7494690 |
MO_MCC_075, skin - ADT |
| GSM7494691 |
MO_MCC_075, skin - ab VDJ |
| GSM7494692 |
MO_MCC_075, skin - gd VDJ |
| GSM7494693 |
MO_MCC_076, skin - RNA |
| GSM7494694 |
MO_MCC_076, skin - ADT |
| GSM7494697 |
MO_MCC_077, skin - RNA |
| GSM7494698 |
MO_MCC_077, skin - ADT |
| GSM7494699 |
MO_MCC_077, skin - ab VDJ |
| GSM7494700 |
MO_MCC_077, skin - gd VDJ |
| GSM7494701 |
MO_MCC_078, lymph node - RNA |
| GSM7494702 |
MO_MCC_078, lymph node - ADT |
| GSM7494703 |
MO_MCC_078, lymph node - ab VDJ |
| GSM7494704 |
MO_MCC_078, lymph node - gd VDJ |
| GSM7494705 |
MO_MCC_079Post, skin - RNA |
| GSM7494708 |
MO_MCC_079Post, skin - gd VDJ |
| GSM7494709 |
MO_MCC_079Pre, skin - RNA |
| GSM7494710 |
MO_MCC_079Pre, skin - ADT |
| GSM7494711 |
MO_MCC_079Pre, skin - ab VDJ |
| GSM7494712 |
MO_MCC_079Pre, skin - gd VDJ |
| GSM7494713 |
MO_MCC_080, skin - RNA |
| GSM7494714 |
MO_MCC_080, skin - ADT |
| GSM7494715 |
MO_MCC_080, skin - ab VDJ |
| GSM7494716 |
MO_MCC_080, skin - gd VDJ |
| GSM7494717 |
MO_MCC_081Pre, skin - RNA |
| GSM7494718 |
MO_MCC_081Pre, skin - ADT |
| GSM7494721 |
MO_MCC_082LN, lymph node - RNA |
| GSM7494722 |
MO_MCC_082LN, lymph node - ADT |
| GSM7494723 |
MO_MCC_082LN, lymph node - ab VDJ |
| GSM7494724 |
MO_MCC_082LN, lymph node - gd VDJ |
| GSM7494725 |
MO_MCC_082skin, skin - RNA |
| GSM7494726 |
MO_MCC_082skin, skin - ADT |
| GSM7494727 |
MO_MCC_082skin, skin - ab VDJ |
| GSM7494728 |
MO_MCC_082skin, skin - gd VDJ |
| GSM7494729 |
MO_MCC_084, skin - RNA |
| GSM7494730 |
MO_MCC_084, skin - ADT |
| GSM7494731 |
MO_MCC_084, skin - ab VDJ |
| GSM7494732 |
MO_MCC_084, skin - gd VDJ |
| GSM7494733 |
MO_MCC_085Post, skin - RNA |
| GSM7494734 |
MO_MCC_085Post, skin - ADT |
| GSM7494735 |
MO_MCC_085Post, skin - ab VDJ |
| GSM7494736 |
MO_MCC_085Post, skin - gd VDJ |
| GSM7494737 |
MO_MCC_085Pre, skin - RNA |
| GSM7494738 |
MO_MCC_085Pre, skin - ADT |
| GSM7494739 |
MO_MCC_085Pre, skin - ab VDJ |
| GSM7494740 |
MO_MCC_085Pre, skin - gd VDJ |
| GSM7494741 |
MO_MCC_086, skin - RNA |
| GSM7494742 |
MO_MCC_086, skin - ADT |
| GSM7494743 |
MO_MCC_086, skin - ab VDJ |
| GSM7494744 |
MO_MCC_086, skin - gd VDJ |
| GSM7494745 |
MO_MCC_088, skin - RNA |
| GSM7494746 |
MO_MCC_088, skin - ADT |
| GSM7494747 |
MO_MCC_088, skin - ab VDJ |
| GSM7494748 |
MO_MCC_088, skin - gd VDJ |
| GSM7494749 |
MO_MCC_089, skin - RNA |
| GSM7494750 |
MO_MCC_089, skin - ADT |
| GSM7494751 |
MO_MCC_089, skin - ab VDJ |
| GSM7494752 |
MO_MCC_089, skin - gd VDJ |
| GSM7494753 |
MO_MCC_092, skin - RNA |
| GSM7494754 |
MO_MCC_092, skin - ADT |
| GSM7494755 |
MO_MCC_092, skin - ab VDJ |
| GSM7494756 |
MO_MCC_092, skin - gd VDJ |
| GSM7494757 |
MO_MCC_093, skin - RNA |
| GSM7494758 |
MO_MCC_093, skin - ADT |
| GSM7494759 |
MO_MCC_093, skin - ab VDJ |
| GSM7494760 |
MO_MCC_093, skin - gd VDJ |
| GSM7494761 |
MO_MCC_094, skin - RNA |
| GSM7494762 |
MO_MCC_094, skin - ADT |
| GSM7494763 |
MO_MCC_094, skin - ab VDJ |
| GSM7494764 |
MO_MCC_094, skin - gd VDJ |
| GSM7494765 |
MO_MCC_095, skin - RNA |
| GSM7494766 |
MO_MCC_095, skin - ADT |
| GSM7494767 |
MO_MCC_095, skin - ab VDJ |
| GSM7494768 |
MO_MCC_095, skin - gd VDJ |
| GSM7494769 |
MO_MCC_096, skin - RNA |
| GSM7494770 |
MO_MCC_096, skin - ADT |
| GSM7494771 |
MO_MCC_096, skin - ab VDJ |
| GSM7494772 |
MO_MCC_096, skin - gd VDJ |
| GSM7494773 |
MO_MCC_099, skin - RNA |
| GSM7494774 |
MO_MCC_099, skin - ADT |
| GSM7494775 |
MO_MCC_099, skin - ab VDJ |
| GSM7494776 |
MO_MCC_099, skin - gd VDJ |
| GSM7494777 |
MO_MCC_100, skin - RNA |
| GSM7494778 |
MO_MCC_100, skin - ADT |
| GSM7494779 |
MO_MCC_100, skin - ab VDJ |
| GSM7494780 |
MO_MCC_100, skin - gd VDJ |
| GSM7494781 |
MO_MCC_101, skin - RNA |
| GSM7494782 |
MO_MCC_101, skin - ADT |
| GSM7494783 |
MO_MCC_101, skin - ab VDJ |
| GSM7494784 |
MO_MCC_101, skin - gd VDJ |
| GSM7494785 |
MO_MCC_102, skin - RNA |
| GSM7494786 |
MO_MCC_102, skin - ADT |
| GSM7494787 |
MO_MCC_102, skin - ab VDJ |
| GSM7494788 |
MO_MCC_102, skin - gd VDJ |
| GSM7494789 |
MO_MCC_103, skin - RNA |
| GSM7494790 |
MO_MCC_103, skin - ADT |
| GSM7494791 |
MO_MCC_103, skin - ab VDJ |
| GSM7494792 |
MO_MCC_103, skin - gd VDJ |
| GSM7494793 |
NU_MCC_005, skin - RNA |
| GSM7494794 |
NU_MCC_005, skin - ab VDJ |
| GSM7494795 |
NU_MCC_005, skin - gd VDJ |
| GSM7494796 |
NU_MCC_005, skin - ADT |
| GSM7494797 |
NU_MCC_021, adrenal - RNA |
| GSM7494798 |
NU_MCC_021, adrenal - ab VDJ |
| GSM7494799 |
NU_MCC_021, adrenal - gd VDJ |
| GSM7494800 |
NU_MCC_021, adrenal - ADT |
| GSM7494801 |
NU_MCC_030, lymph node - ab VDJ |
| GSM7494802 |
NU_MCC_030, lymph node - gd VDJ |
| GSM7494803 |
NU_MCC_030, lymph node - RNA |
| GSM7494804 |
NU_MCC_030, lymph node - ADT |
| GSM7494805 |
NU_MCC_043, lymph node - ADT |
| GSM7494806 |
NU_MCC_043, lymph node - RNA |
| GSM7494807 |
NU_MCC_043, lymph node - ab VDJ |
| GSM7494808 |
NU_MCC_043, lymph node - gd VDJ |
| GSM7494809 |
NU_MCC_044Post2_RNA,skin |
| GSM7494810 |
NU_MCC_044Post2_abVDJ,skin |
| GSM7494811 |
NU_MCC_044Post2_gdVDJ,skin |
| GSM7494812 |
NU_MCC_044Post2_ADT,skin |
| GSM7494813 |
NU_MCC_044Post1_RNA,skin |
| GSM7494814 |
NU_MCC_044Post1_abVDJ,skin |
| GSM7494815 |
NU_MCC_044Post1_gdVDJ,skin |
| GSM7494816 |
NU_MCC_044Post1_ADT,skin |
| GSM7494817 |
NU_MCC_053, skin - RNA |
| GSM7494818 |
NU_MCC_053, skin - ab VDJ |
| GSM7494819 |
NU_MCC_053, skin - gd VDJ |
| GSM7494820 |
NU_MCC_053, skin - ADT |
| GSM7494821 |
NU_MCC_054, adrenal - RNA |
| GSM7494822 |
NU_MCC_054, adrenal - ab VDJ |
| GSM7494823 |
NU_MCC_054, adrenal - gd VDJ |
| GSM7494824 |
NU_MCC_054, adrenal - ADT |
| GSM8180999 |
MO_MCC_120Post_RNA, skin |
| GSM8181000 |
MO_MCC_120Post_ADT, skin |
| GSM8181001 |
MO_MCC_120Post_abVDJ, skin |
| GSM8181002 |
MO_MCC_120Post_gdVDJ, skin |
| GSM8181003 |
MO_MCC_121Post_RNA, skin |
| GSM8181004 |
MO_MCC_121Post_ADT, skin |
| GSM8181005 |
MO_MCC_121Post_abVDJ, skin |
| GSM8181006 |
MO_MCC_121Post_gdVDJ, skin |
| GSM8181007 |
MO_MCC_122Post_RNA, skin |
| GSM8181008 |
MO_MCC_122Post_ADT, skin |
| GSM8181009 |
MO_MCC_122Post_abVDJ, skin |
| GSM8181010 |
MO_MCC_122Post_gdVDJ, skin |
| GSM8181011 |
MO_MCC_124Post_RNA, skin |
| GSM8181012 |
MO_MCC_124Post_ADT, skin |
| GSM8181013 |
MO_MCC_124Post_abVDJ, skin |
| GSM8181014 |
MO_MCC_124Post_gdVDJ, skin |
| GSM8181015 |
MO_MCC_138Post_RNA, skin |
| GSM8181016 |
MO_MCC_138Post_ADT, skin |
| GSM8181017 |
MO_MCC_138Post_abVDJ, skin |
| GSM8181018 |
MO_MCC_138Post_gdVDJ, skin |
|
| This SubSeries is part of SuperSeries: |
| GSE235093 |
Pre-existing skin-resident CD8 and γδ T cell circuits mediate immune response in Merkel cell carcinoma and Predict immunotherapy efficacy |
|
| Relations |
| BioProject |
PRJNA984316 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE235090_MO_MCC_011.tar.gz |
15.6 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_057.tar.gz |
44.5 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_059.tar.gz |
46.3 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_061.tar.gz |
26.2 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_066.tar.gz |
32.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_068LN.tar.gz |
10.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_068skin.tar.gz |
11.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_069.tar.gz |
13.7 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_071.tar.gz |
33.0 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_072.tar.gz |
12.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_073.tar.gz |
6.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_074.tar.gz |
35.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_075.tar.gz |
7.6 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_076.tar.gz |
19.3 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_077.tar.gz |
24.7 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_078.tar.gz |
8.2 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_079Post.tar.gz |
17.0 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_079Pre.tar.gz |
15.3 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_080.tar.gz |
9.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_081Pre.tar.gz |
21.6 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_082LN.tar.gz |
56.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_082skin.tar.gz |
38.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_084.tar.gz |
24.8 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_085Post.tar.gz |
18.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_085Pre.tar.gz |
52.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_086.tar.gz |
44.5 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_088.tar.gz |
52.6 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_089.tar.gz |
22.3 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_092.tar.gz |
14.7 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_093.tar.gz |
30.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_094.tar.gz |
71.3 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_095.tar.gz |
17.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_096.tar.gz |
59.3 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_099.tar.gz |
63.7 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_100.tar.gz |
59.0 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_101.tar.gz |
28.8 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_102.tar.gz |
70.2 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_103.tar.gz |
76.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_120Post.tar.gz |
26.2 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_121Post.tar.gz |
179.8 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_122Post.tar.gz |
2.1 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_124Post.tar.gz |
5.0 Mb |
(ftp)(http) |
TAR |
| GSE235090_MO_MCC_138Post.tar.gz |
65.6 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_005.tar.gz |
21.5 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_021.tar.gz |
13.0 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_030.tar.gz |
16.4 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_043.tar.gz |
22.5 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_044Post1.tar.gz |
33.2 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_044Post2.tar.gz |
18.6 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_053.tar.gz |
28.5 Mb |
(ftp)(http) |
TAR |
| GSE235090_NU_MCC_054.tar.gz |
37.5 Mb |
(ftp)(http) |
TAR |
| Processed data are available on Series record |
| Raw data not provided for this record |
|
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