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Table 1 Rank order of cell lines according to their signature strength

From: Defining new criteria for selection of cell-based intestinal models using publicly available databases

Cell Line

EMT

HuISC

WNT

Trans_BC

SLC_SI3

SLC_PM

ABC

MKI67_CO

IC50_pos

IC50_neg

CAF

1

1

8

29

24

23

30

24

6

7

MB231

2

2

23

30

30

29

27

10

10

21

COLO320

3

11

4

17

27

28

10

4

4

29

SW480

4

4

2

28

25

27

17

17

24

12

SW620

5

9

1

27

29

22

20

8

7

26

Tumor

6

3

3

20

8

24

26

23

5

20

Normal

7

10

26

12

7

14

9

27

2

18

Caco,Fl,D

8

15

14

6

6

5

6

21

8

13

Caco,Fl,U

9

7

6

5

11

6

2

13

16

1

Caco_CDX2,U

10

6

21

7

13

7

7

18

11

23

Caco_CDX2,D

11

25

25

3

3

3

4

28

29

14

JE

12

29

30

13

4

12

22

29

3

30

KM12

13

22

20

10

23

11

21

2

13

5

HCT116

14

12

24

21

26

25

18

14

9

24

Caco,Fi,D

15

26

27

2

2

2

5

26

17

19

T84

16

17

18

26

9

17

29

22

22

25

CacoReady

17

19

16

4

5

4

1

20

15

10

HT29,R

18

16

11

24

16

10

13

5

25

3

DLD1

19

13

5

9

18

15

24

3

18

2

Caco,S

20

27

15

23

22

20

11

9

28

6

HT29,S

21

18

13

18

15

13

12

1

20

4

MCF7

22

24

28

25

28

30

25

15

14

28

HT29,D

23

28

22

22

10

21

16

25

26

8

Caco,R

24

14

12

16

19

18

8

7

27

11

IL

25

30

29

1

1

1

3

30

1

27

HT29,U

26

23

19

19

14

9

23

16

30

17

LOVO

27

5

7

14

21

16

19

6

12

15

LS174T

28

8

10

15

12

26

28

19

23

16

COLO205

29

20

9

11

17

8

15

12

21

22

HCT15

30

21

17

8

20

19

14

11

19

9

  1. EMT = EMT-related genes, HuISC=“Humanized intestinal stem cell signature”, WNT = direct Wnt targets, Trans_BC = Transporters known to play important role in oral drug absorption, SLC_SI3 = solute carriers expressed at a significantly higher level in small intestinal samples versus colon samples, SLC_PM = solute carriers of the plasma membrane, ABC = ABC transporters, MKI67_CO: Set of genes correlating with MKI67 expression in colon cancer samples, IC50_pos, IC50_neg: Genes with either strong positive or negative correlation between GI50 values of chemotherapeutics and expression across 60 cell line panel (for details of signatures see Additional file 6, methods). Tumor = laser dissected tumor cells, Normal = laser dissected colonocytes, JE, IL = laser dissected enterocytes of the jejunum or ileum, respectively, D = differentiated, U = undifferentiated, Fi = grown on filters, Fl = grown in flasks, R = resistant to methotraxate, S = sensitive to methotrexate.
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BMC Genomics

ISSN: 1471-2164

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