# Gallery

The following are some datasets with both scRNA-seq and scTCR-seq data available in the publications. The data were reanalyzed using `immunopipe` with the configurations provided in each repository, where the results are also available. In the README file of each repository, you can find the links to the original publications and the reports generated by `immunopipe`.

| ID | GEO | Repository | Condition |
| -- | --- | ---------- | --------- |
| 1  | [GSE144469][1] | [immunopipe-AdrienneML-2020][10] | Melanoma and therapy |
| 2  | [GSE176201][2] | [immunopipe-CheonIS-2021][11] | COVID-19 lung tissue |
| 3  | [GSE180268][3] | [immunopipe-EberhardtCS-2021][12] | HPV and Head and Neck cancer |
| 4  | [GSE114724][4] | [immunopipe-ElhamA-2018][13] | Breast Cancer |
| 5  | [GSE161192][5] | [immunopipe-GateD-2021][14] | LB dementia |
| 6  | [GSE179994][6] | [immunopipe-LiuB-2022][15] | anti-PD-1 therapy in lung cancer |
| 7  | [GSE148190][7] | [immunopipe-MahuronKM-2020][16] | Skin cancer |
| 8  | [GSE139555][8] | [immunopipe-ThomasW-2020][17] | Anti-PD1 therapy |
| 9  | [GSE145370][9] | [immunopipe-ZhengY-2020][18] | Oesophageal cancer |

| ID | # Individuals | # Samples | # Cells | # matched TCR seqs |
| -- | ------------- | --------- | ------- | ----------------- |
| 1  | 22 | 22 | 75,569 | 68,760 |
| 2  | 5 | 6 | 34,781 | 23,081 |
| 3  | 6 | 6 | 53,303 | 26,844 |
| 4  | 3 | 5 | 28,341 | 24,039 |
| 5  | 2 | 4 | 6,438 | 5,642 |
| 6  | 38 | 47 | 150,849 | 77,030 |
| 7  | 1 | 2 | 8,794 | 4,904 |
| 8  | 14 | 32 | 194,519 | 67,700 |
| 9  | 7 | 14 | 108,226 | 35,449 |

| ID | Reference |
| -- | --------- |
| 1  | [Luoma, Adrienne M., et al. 2020](https://www.cell.com/cell/fulltext/S0092-8674(20)30688-7) |
| 2  | [Cheon, I. S., et al. 2021](https://www.science.org/doi/full/10.1126/sciimmunol.abk1741) |
| 3  | [Eberhardt, Christian S., et al. 2021](https://www.nature.com/articles/s41586-021-03862-z) |
| 4  | [Alizadeh, Elham, et al. 2018](https://www.cell.com/cell/fulltext/S0092-8674(18)30723-2) |
| 5  | [Gate, David, et al. 2021](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9122025/) |
| 6  | [Liu, B., et al. 2022](https://www.nature.com/articles/s43018-021-00292-8) |
| 7  | [Mahuron, Kelly M., et al. 2020](https://rupress.org/jem/article/217/9/e20192080/151858/Layilin-augments-integrin-activation-to-promote) |
| 8  | [Wu, Thomas D., et al. 2020](https://www.nature.com/articles/s41586-020-2056-8) |
| 9  | [Zheng, Y., et al. 2020](https://www.nature.com/articles/s41467-020-20019-0) |

[1]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE144469
[2]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE176201
[3]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE180268
[4]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE114724
[5]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE161192
[6]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE179994
[7]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE148190
[8]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE139555
[9]: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE145370
[10]: https://github.com/pwwang/immunopipe-AdrienneML-2020
[11]: https://github.com/pwwang/immunopipe-CheonIS-2021
[12]: https://github.com/pwwang/immunopipe-EberhardtCS-2021
[13]: https://github.com/pwwang/immunopipe-ElhamA-2018
[14]: https://github.com/pwwang/immunopipe-GateD-2021
[15]: https://github.com/pwwang/immunopipe-LiuB-2022
[16]: https://github.com/pwwang/immunopipe-MahuronKM-2020
[17]: https://github.com/pwwang/immunopipe-ThomasW-2020
[18]: https://github.com/pwwang/immunopipe-ZhengY-2020
