Maker genes in some papers(update)
| Tissue | CellType | Gene Full Name | Gene Symbol | Reference |
|---|---|---|---|---|
| Epididymal Epithelial cells | Principal cell | Aquaporin9 | Aqp9 | [1-3] |
| Epididymal Epithelial cells | Principal cell | CF Transmembrane Conductance Regulator | Cftr | [4, 5] |
| Epididymal Epithelial cells | Basal cell | Keratin 5 | Krt5 | [1, 2, 6, 7] |
| Epididymal Epithelial cells | Basal cell | Claudin-1 | Cldn1 | [7, 8] |
| Epididymal Epithelial cells | Clear cell | V-ATPa s e B1 subuni t | Atp6v1b1 | [2-4, 7] |
| Epididymal Epithelial cells | Clear cell | Forkhead Box I1 | Foxi1 | [9] |
| Epididymal Epithelial cells | Narrow cell | Carbonic anhydrase II | Car2 | [9] |
| Epididymal Epithelial cells | Narrow cell | Forkhead Box I1 | Foxi1 | [9] |
| Epididymal Epithelial cells | Narrow cell | CD4 antigen | Cd4 | [10] |
| Epididymal Epithelial cells | Narrow cell | CD8 antigen, alpha chain | Cd8a | [10] |
| Non-epithelial cells | Spermatozoa | Transition Protein 2 | Tnp2 | [11] |
| Non-epithelial cells | Spermatozoa | Transition Protein 1 | Tnp1 | [11, 12] |
| Non-epithelial cells | Myoid cell | Actin Alpha 2, Smooth Muscle | Acta2 | [13-15] |
| Non-epithelial cells | Myoid cell | Myosin Heavy Chain 11 | Myh11 | [16] |
| Non-epithelial cells | Fibroblasts | Collagen Type I Alpha 1 Chain | Col1a1 | [13] |
| Non-epithelial cells | Macrophages | Adhesion G Protein-Coupled Receptor E1 | F4/80,Adgre1 | [1, 6, 17-19] |
| Non-epithelial cells | Macrophages | Integrin subunit alpha M | Itgam | [18-20] |
| Non-epithelial cells | Macrophages | CD68 Molecule | Cd68 | [17, 19, 20] |
| Non-epithelial cells | Monocytes | Colony stimulating factor 1 receptor | Cd115,Csf1r | [13] |
| Non-epithelial cells | Monocytes | Lysozyme 2 | Lyz2 | [13] |
| Non-epithelial cells | Endothelial | Platelet And Endothelial Cell Adhesion Molecule 1 | Pecam1 | [21, 22] |
| Non-epithelial cells | Endothelial | Endoglin | Eng | [21, 22] |
| Non-epithelial cells | Endothelial | Cadherin 5 | Cdh5 | [13, 21, 22] |
| Non-epithelial cells | Erythrocyte(Red blood cells) | Hemoglobin Subunit Alpha 1 | Hba-a1 | [21] |
| Non-epithelial cells | Erythrocyte(Red blood cells) | Hemoglobin Subunit Alpha 2 | Hba-a2 | [21] |
| Non-epithelial cells | Erythrocyte(Red blood cells) | hemoglobin, beta adult s chain | Hbb-bs | [21] |
Reference
1. Zhu, W., et al., Pattern recognition receptor-initiated innate antiviral responses in mouse
epididymal epithelial cells. J Immunol, 2015. 194(10): p. 4825-35.
2. Carvajal, G., et al., Impaired male fertility and abnormal epididymal epithelium differentiation
in mice lacking CRISP1 and CRISP4. Sci Rep, 2018. 8(1): p. 17531.
3. Krapf, D., et al., CSrc is necessary for epididymal development and is incorporated into sperm
during epididymal transit. Developmental Biology, 2012. 369(1): p. 43-53.
4. Shum, W.W., et al., Regulation of luminal acidification in the male reproductive tract via cell-
cell crosstalk. J Exp Biol, 2009. 212(Pt 11): p. 1753-61.
5. Pietrement, C., et al., Role of NHERF1, Cystic Fibrosis Transmembrane Conductance Regulator, and cAMP in the Regulation of Aquaporin 9. Journal of Biological Chemistry, 2008. 283(5): p.
2986-2996.
6. Shum, W.W., et al., Epithelial basal cells are distinct from dendritic cells and macrophages in
the mouse epididymis. Biol Reprod, 2014. 90(5): p. 90.
7. Shum, W.W., et al., Transepithelial projections from basal cells are luminal sensors in
pseudostratified epithelia. Cell, 2008. 135(6): p. 1108-17.
8. Shum, W.W.C., et al., Regulation of luminal acidification in the male reproductive tract via cell-
cell crosstalk. Journal of Experimental Biology. 212(11): p. 1753-1761.
9. Blomqvist, S.R., et al., Epididymal expression of the forkhead transcription factor Foxi1 is
required for male fertility. EMBO J, 2006. 25(17): p. 4131-41.
10. Distribution of immune cells in the epididymis of the aging Brown Norway rat is segment-
specific and related to the luminal content. 1999. 61(3): p. 705-14.
11. Hermann, B.P., et al., The Mammalian Spermatogenesis Single-Cell Transcriptome, from
Spermatogonial Stem Cells to Spermatids. Cell Rep, 2018. 25(6): p. 1650-1667 e8.
12. Wang, M. , et al . , Single-Cell RNA Sequencing Analysis Reveals Sequential Cell Fate Transition
during Human Spermatogenesis. Cell Stem Cell, 2018. 23(4): p. 599-614 e4.
13. Kalluri, A.S., et al., Single-Cell Analysis of the Normal Mouse Aorta Reveals Functionally
Distinct Endothelial Cell Populations. Circulation, 2019. 140(2): p. 147-163.
14. Xie, T., et al., Single-Cell Deconvolution of Fibroblast Heterogeneity in Mouse Pulmonary
Fibrosis. Cell Rep, 2018. 22(13): p. 3625-3640.
15. Guo, J., et al., The adult human testis transcriptional cell atlas. Cell Res, 2018. 28(12): p. 1141-
1157.
16. Rebourcet, D., et al., Sertoli cells control peritubular myoid cell fate and support adult Leydig
cell development in the prepubertal testis. Development, 2014. 141(10): p. 2139-49.
17. Mould, K.J., et al., Single cell RNA sequencing identifies unique inflammatory airspace
macrophage subsets. JCI Insight, 2019. 4(5).
18. Zimmerman, K.A., et al., Single-Cell RNA Sequencing Identifies Candidate Renal Resident
Macrophage Gene Expression Signatures across Species. J Am Soc Nephrol, 2019. 30(5): p.
767-781.
19. DeFalco, T., et al., Macrophages Contribute to the Spermatogonial Niche in the Adult Testis.
Cell Rep, 2015. 12(7): p. 1107-19.
20. Masaki and T., Heterogeneity of antigen expression explains controversy over glomerular
macrophage accumulation in mouse glomerulonephritis. Nephrology Dialysis Transplantation,
2003. 18(1): p. 178-181.
21. Kalucka, J., et al., Single-Cell Transcriptome Atlas of Murine Endothelial Cells. Cell, 2020.
180(4): p. 764-779 e20.
22. Lukowski, S.W., et al., Single-Cell Transcriptional Profiling of Aortic Endothelium Identifies a
Hierarchy from Endovascular Progenitors to Differentiated Cells. Cell Rep, 2019. 27(9): p.
2748-2758 e3.
intermediate monocytes : HLA-DR* [1-5] CD74[6]
naive CD8 T cells : CCR7[7-8],TCF7[8],LEF1[8]
naive CD4 T cells and naive CD8 T cells : CD45RA, CD62L, CD27, CD28, CCR9, CD31 and/or CD103 [9-13]
myeloid DC: CST3, HLA-DPA1, HLA-DQB1[14]
non-classical monocytes:TCF7L2[15,21],MS4A7,MTSS1,CDKN1C[15]
NK:CD56[22], GNLY, NKG7[16]
memory B cell:IGHM [17]
pDC: CD123, CD303, CD304 [22]
mDC(myeloid DC): CD11c, CD13, CD33, CD11b [22]
classical monocytes: CD14, CD11b and CCR2, several S100 calcium binding protein A12 (S100A12), Neuroregulin 1 (NRG1), Phospholipase A Group VII(PLA2G7), cAMP responsive element binding protein 5 (CREB5), A Disintegrin And Metalloproteinase 19 (ADAM19), Low density Lipoprotein Receptor (LDLR), scavenger receptors class B type-1 (SCARB1) and Stabilin-1 (STAB1)[20]
neutrophil-like: S100A8, S100A9, CSF3R [24]
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https://github.com/broadinstitute/single_cell_classification