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Table 1 Number of genes with selected models for different protocols from Ziegenhain et al. [12]

From: UMI-count modeling and differential expression analysis for single-cell RNA sequencing

     

NB vs ZINB

 

Poisson vs NB

 

Protocol

Cells used (n)

Genes detected (n)

Genes tested (n)

Genes converged (n)

ZINB

NB

Poisson

Poisson (%)

UMI count

        

 CEL-Seq2/C1(A)

34

16,690

11,345

11,345

0

2968

8377

73.84

 CEL-Seq2/C1(B)

37

17,229

12,190

12,189

0

3794

8395

68.87

 Drop-Seq(A)

42

16,579

10,702

10,702

0

4277

6425

60.04

 Drop-Seq(B)

34

15,469

9288

9288

0

3659

5629

60.61

 MARS-Seq(A)

29

14,551

8266

8266

0

4592

3674

44.45

 MARS-Seq(B)

36

15,406

9644

9644

0

5848

3796

39.36

 SCRB-Seq(A)

39

16,411

12,955

12,955

0

1214

11,741

90.63

 SCRB-Seq(B)

45

16,944

13,212

13,212

0

2115

11,097

83.99

 CEL-Seq2/C1(A)

34

16,690

11,345

10,679

3679

6385

615

5.76

 CEL-Seq2/C1(B)

37

17,229

12,190

12,155

1174

10,443

538

4.43

 Drop-Seq(A)

42

16,579

10,702

10,690

121

9601

968

9.06

 Drop-Seq(B)

34

15,469

9288

9278

91

8329

858

9.25

 MARS-Seq(A)

29

14,551

8266

8132

761

7161

210

2.58

 MARS-Seq(B)

36

15,406

9644

9531

1333

7974

224

2.35

 SCRB-Seq(A)

39

16,411

12,955

12,954

0

11,814

1140

8.80

 SCRB-Seq(B)

45

16,944

13,212

13,212

0

11,964

1248

9.45

Read count

        

 Smart-Seq2(A)

80

21,076

15,294

15,098

7905

5795

1398

9.26

 Smart-Seq2(B)

77

20,861

15,224

15,152

6456

7244

1452

9.58

 Smart-Seq/C1(A)

69

19,699

13,518

13,513

16

12,761

736

5.45

 Smart-Seq/C1(B)

61

19,100

12,949

12,947

0

11,888

1059

8.18