? CellMarker | 人骨骼肌组织细胞Marker大全！~（强烈建议火速收藏！）

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发布于 2024-05-08 15:50:19

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发布于 2024-05-08 15:50:19

文章被收录于专栏：R语言及实用科研软件R语言及实用科研软件

1写在前面

分享一下最近看到的2篇paper关于骨骼肌组织的细胞Marker，绝对的Atlas级好东西。?

希望做单细胞的小伙伴觉得有用哦。?

2常用marker（一）

general_mrkrs <- c(
  'MYH7', 'TNNT1', 'TNNT3', 'MYH1', 'MYH2', "CKM", "MB", # Myofibers
           'PAX7', 'DLK1', # MuSCs
           'PDGFRA', 'DCN', 'ANGPTL7', 'OSR2', 'NGFR', 'SLC22A3','ITGA6', # Fibroblasts
           'FMOD', 'TNMD' ,  'MKX', # Tenocytes
 'MPZ', 'MBP',  # Schwann cells
'CDH2', 'L1CAM', # SCG
'MSLN', 'ITLN1', # mesothelium
"ADIPOQ", "PLIN1", # adipocytes
'PTPRC', 'CD3D', 'IL7R', # T cells
'NKG7', 'PRF1', #NK cells
'CD79A', "TCL1A",  # B cells
'MZB1', 'JCHAIN', # B plasma 
"CD14", "FCGR3A",'S100A8', 'S100A12', # Mono
"CD163", "C1QA", # Macrop
"XCR1", "CLEC9A", # cDC1 "CADM1",
"CD1C", "CLEC10A", "CCR7", # cDC2
'LILRA4', 'IL3RA', "IRF7",  # pDC 
'FCGR3B', 'CSF3R', 'SORL1',  # Neutrophils
'EPX', 'PRG2', # Eosinophils 'CLC'
'TPSB2', 'MS4A2', # Mast cells
'PECAM1', 'HEY1','CLU', # art EC
'CA4', 'LPL', # capEC
'ACKR1', 'SELE', # venEC
'LYVE1', 'TFF3',  # lymphEC
'RGS5','ABCC9', # pericytes           
'MYH11', 'ACTA2', # SMC
'HBA1', #RBC
                  )

出自下面paper:?

Human skeletal muscle aging atlas. Veronika R. Kedlian, Yaning Wang, Tianliang Liu, Xiaoping Chen, Liam Bolt, Catherine Tudor, Zhuojian Shen, Eirini S. Fasouli, Elena Prigmore, Vitalii Kleshchevnikov, Jan Patrick Pett, Tong Li, John E G Lawrence, Shani Perera, Martin Prete, Ni Huang, Qin Guo, Xinrui Zeng, Lu Yang, Krzysztof Polański, Nana-Jane Chipampe, Monika Dabrowska, Xiaobo Li, Omer Ali Bayraktar, Minal Patel, Natsuhiko Kumasaka, Krishnaa T. Mahbubani, Andy Peng Xiang, Kerstin B. Meyer, Kourosh Saeb-Parsy, Sarah A Teichmann & Hongbo Zhang 2024 Apr.

3常用marker（二）

Mural Cell Markers

# SMOOTH MUSCLE CELLS
FeaturePlot(df.harmony, features = "MYH11", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "ACTA2", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "TAGLN", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

#PERICYTES
FeaturePlot(df.harmony, features = "RGS5", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "CSPG4", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "PDGFRB", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

Glial Cells Markers

FeaturePlot(df.harmony, features = "PROX1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "MPZ", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "NCAM1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "CDH19", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "SOX10", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "PLP1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

Adipocites Markers

FeaturePlot(df.harmony, features = "PLIN1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "ADIPOQ", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "MMRN1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "CCL21", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

Tenocytes Markers

FeaturePlot(df.harmony, features = "FMOD", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "TNMD", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "COL22A1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "SCX", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "DLG2", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "FBN1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

Endothelial Markers

#FeaturePlot(df.harmony, features = "PCDHA6", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

#ARTERIAL 
FeaturePlot(df.harmony, features = "FBLN5", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "DLL4", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "SEMA3G", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

#CAPILLARIES
FeaturePlot(df.harmony, features = "RGCC", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

#VENOUS
FeaturePlot(df.harmony, features = "EPHB4", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

Myonuclei Markers

FeaturePlot(df.harmony, features = "TTN", min.cutoff = "q9", order = T, cols = c("lightblue", "navy"), raster = FALSE)

#IMMATURE MYOCYTE
FeaturePlot(df.harmony, features = "MYMX", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "MYOG", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

#REG MYONUCLEI
FeaturePlot(df.harmony, features = "FLNC", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "MYH3", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "MYH8", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "XIRP1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

NMJ Myonuclei Markers (Neuromuscular junction)

#NMJ
FeaturePlot(df.harmony, features = "CHRNE", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "CHRNA1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "PRKAR1A", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "COL25A1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "UTRN", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "COLQ", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "ABLIM2", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "VAV3", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "UFSP1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

MTJ Myonuclei Markers (Myotendinous junction)

#MTJ
FeaturePlot(df.harmony, features = "COL22A1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "PIEZO2", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "COL24A1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "COL6A1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "FSTL1", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "COL6A3", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)
FeaturePlot(df.harmony, features = "TIGD4", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

FeaturePlot(mini_df.harmony.harmony, features = "EYS", min.cutoff = "q9", order = TRUE, cols = c("lightblue", "navy"), raster = FALSE)

出自下面paper:?

Lai, Y., Ramírez-Pardo, I., Isern, J. et al. Multimodal cell atlas of the ageing human skeletal muscle. Nature (2024).

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