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GEO help: Mouse over screen elements for information. |
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| Status |
Public on May 29, 2024 |
| Title |
Spatial transcriptome analysis of muscle sections from Icos-/- NOD mice with established myositis |
| Organism |
Mus musculus |
| Experiment type |
Other
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| Summary |
Icos-/- NOD mice are a model of spontaneous myositis. By using Nanostring GeoMx technology (Mouse WTA), we aimed to investigate the differences in gene expression between myofibers of Icos+/+ NOD (WT) mice and myofibers from Icos-/- NOD mice either in direct contact or not with large infiltrate clusters.
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| Overall design |
Using Nanostring technology, the transcriptomes of myofibers vs. immune cells were analysed separately by using desmin and CD45 markers. The present study includes the following AOIs: 4 AOIs from Icos+/+ NOD muscle (n=4 mice, 1 AOI/mouse, desmin+CD45-) , 6 AOIs from Icos-/- NOD muscle not directly adjacent to immune cell infiltrates (PROX, n=6 mice, 1 AOI/mouse, desmin+CD45-), 8 AOIs from Icos-/- NOD muscle directly adjacent to immune cell infiltrates (ADJ, n=6 mice, 1-2 AOI/mouse, desmin+CD45-), 8 AOIs from Icos-/- NOD muscle coresponsing to immune cell infiltrates (INF, n=6 mice, 1-2 AOI/mouse, desmin-CD45+).
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| Contributor(s) |
Abad C, Boyer O |
| Citation(s) |
38926363 |
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| Submission date |
Mar 25, 2024 |
| Last update date |
Jul 31, 2024 |
| Contact name |
Catalina Abad |
| E-mail(s) |
catalina.abad@inserm.fr
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| Organization name |
Inserm U1234
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| Street address |
22 Blvd Gambetta
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| City |
Rouen |
| ZIP/Postal code |
76000 |
| Country |
France |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (26)
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| GSM8163707 |
Muscle, Icos-/- NOD, CD45+, INF [1_3|001|CD45+] |
| GSM8163708 |
Muscle, Icos-/- NOD, CD45-, ADJ [1_3|001|CD45-] |
| GSM8163709 |
Muscle, Icos-/- NOD, CD45-, PROX [1_3|002|CD45-] |
| GSM8163710 |
Muscle, Icos-/- NOD, CD45+, INF [1_3|003|CD45+] |
| GSM8163711 |
Muscle, Icos-/- NOD, CD45-, ADJ [1_3|003|CD45-] |
| GSM8163712 |
Muscle, Icos-/- NOD, CD45-, PROX [1_3|004|CD45-] |
| GSM8163713 |
Muscle, Icos-/- NOD, CD45+, INF [1_3|005|CD45+] |
| GSM8163714 |
Muscle, Icos-/- NOD, CD45-, ADJ [1_3|005|CD45-] |
| GSM8163715 |
Muscle, Icos-/- NOD, CD45-, PROX [1_3|006|CD45-] |
| GSM8163716 |
Muscle, Icos-/- NOD, CD45+, INF [1_3|007|CD45+] |
| GSM8163717 |
Muscle, Icos-/- NOD, CD45-, ADJ [1_3|007|CD45-] |
| GSM8163718 |
Muscle, Icos+/+ NOD, CD45-, WT control [1_3|008|CD45-] |
| GSM8163719 |
Muscle, Icos+/+ NOD, CD45-, WT control [1_3|009|CD45-] |
| GSM8163720 |
Muscle, Icos-/- NOD, CD45+, INF [4_6|001|CD45+] |
| GSM8163721 |
Muscle, Icos-/- NOD, CD45-, ADJ [4_6|001|CD45-] |
| GSM8163722 |
Muscle, Icos-/- NOD, CD45+, INF [4_6|002|CD45+] |
| GSM8163723 |
Muscle, Icos-/- NOD, CD45-, ADJ [4_6|002|CD45-] |
| GSM8163724 |
Muscle, Icos-/- NOD, CD45-, PROX [4_6|003|CD45-] |
| GSM8163725 |
Muscle, Icos-/- NOD, CD45-, PROX [4_6|004|CD45-] |
| GSM8163726 |
Muscle, Icos+/+ NOD, CD45-, WT control [4_6|005|CD45-] |
| GSM8163727 |
Muscle, Icos+/+ NOD, CD45-, WT control [4_6|006|CD45-] |
| GSM8163728 |
Muscle, Icos-/- NOD, CD45+, INF [4_6|008|CD45+] |
| GSM8163729 |
Muscle, Icos-/- NOD, CD45-, PROX [4_6|008|CD45-] |
| GSM8163730 |
Muscle, Icos-/- NOD, CD45+, INF [4_6|009|CD45+] |
| GSM8163731 |
Muscle, Icos-/- NOD, CD45-, PROX [4_6|009|CD45-] |
| GSM8163732 |
Muscle, Icos-/- NOD, CD45-, PROX [4_6|010|CD45-] |
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| Relations |
| BioProject |
PRJNA1091565 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE262352_Mm_R_NGS_WTA_v1.0.pkc.gz |
1.8 Mb |
(ftp)(http) |
PKC |
| GSE262352_Q3_normalized_Data_WTA.xlsx |
1.6 Mb |
(ftp)(http) |
XLSX |
| GSE262352_RAW.tar |
1.6 Mb |
(http)(custom) |
TAR (of DCC) |
SRA Run Selector |
| Raw data are available in SRA |
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