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Table 2 Number of times that genes corrected for by FastCAR in at least one sample were significantly differentially expressed in cell types before correction and after applying different ambient RNA corrections

From: FastCAR: fast correction for ambient RNA to facilitate differential gene expression analysis in single-cell RNA-sequencing datasets

 

uncorrected

FastCAR

CellBender

SoupX

Secretory

49

47

47

49

Submucosal

20

14

45

18

Ciliated

40

46

39

34

Basal

36

38

42

39

Mucous Ciliated

161

154

167

161

T cells

21

13

7

18

Endothelium

29

21

22

20

Fibroblasts

13

6

10

12

DCs

16

11

15

12

Ionocytes

12

21

28

13

B cells

19

9

27

15

Monocytes

15

17

11

13

Macrophages

20

23

13

24

Cycling

23

15

13

22

Smooth muscle

5

4

4

4

Mast Cells

19

13

9

19

Total

498

452

499

473

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BMC Genomics

ISSN: 1471-2164

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