Skip to main content

Table 1 Relative effects of the 47 target genes in two-dimensional and three-dimensional cultures a

From: A co-culture genome-wide RNAi screen with mammary epithelial cells reveals transmembrane signals required for growth and differentiation

Gene name

RefSeq ID

Relative rank, primary screen ( N  = 47)

Median relative rank, secondary screen ( N  = 47)

Relative rank, three-dimensional growth assay ( N  = 44)

Three-dimensional acinar formation, fold decrease (siRNA)

shRNA knockdown effect on clone

ACE2

NM_021804

22

30

11

5.169

Lethal

ADCY4

NM_139427

44

17

44

0.878

Lethal

BDKRB2

NM_000623

28

44

31

2.484

Growth postselection

BST1

NM_004334

7

6

14

4.406

Lethal

CD79A

NM_001783

13

16

33

2.366

Growth postselection

COL9A3

NM_001853

16

4

22

3.489

Lethal

CTNNA1

NM_001903

37

29

18

4.047

Lethal

EFNAA

NM_005227

38

37

5

7.338

Growth postselection

FIT1

NM_203402

4

22

No data

No data

Growth postselection

FL_J30634

NM_153014

15

30

17

4.055

Growth postselection

FLOT2

NM_004475

23

31

41

1.618

Lethal

FZD2

NM_001466

6

25

19

3.7126

Lethal

GPR182

NM_007264

9

20

32

2.483

Growth postselection

GPR39

NM_001508

10

22

26

3.159

Growth postselection

GPR80

NM_080818

32

14

27

3.137

Lethal

HSD17B2

NM_002153

27

38

2

27.328

Lethal

KCNJ5

NM_000890

3

35

42

1.494

Growth postselection

KTELC1

NM_020231

8

17

No data

No data

Growth postselection

LGALS1

NM_002305

36

7

16

4.120

Growth postselection

LPAR3

NM_012152

1

5

20

3.530

Growth postselection

LTBP3

NM_021070

39

28

9

5.291

Growth postselection

MMP24

NM_00690

40

5

8

5.447

Growth postselection

MMP28

NM_024302

18

25

37

2.075

Lethal

NKAIN4

NM_152864

20

9

21

3.505

Lethal

NPTX1

NM_002522

45

18

6

7.082

Lethal

NTN1

NM_004822

47

22

10

5.175

Growth postselection

NTN2L

NM_006181

5

30

13

4.691

Growth postselection

OPRS1

NM_005866

29

26

24

3.243

Lethal

PARD3

NM_019619

30

31

15

4.221

Lethal

PCDHB13

NM_018933

46

27

43

1.214

Growth postselection

PDCD1

NM_00518

21

36

28

2.997

Growth postselection

PLA2G2F

NM_022819

19

22

38

2.028

Lethal

PLUNC

NM_016583

31

30

23

3.280

Growth postselection

PROCR

NM_006404

35

36

1

31.637

Growth postselection

RHCE

NM_020485

42

31

35

2.209

Lethal

RIPK2

NM_003821

41

23

No data

No data

Lethal

ROBO3

NM_022370

11

35

39

2.012

Growth postselection

SAA1

NM_000331

14

21

12

5.167

Lethal

SCARB2

NM_005506

34

9

34

2.317

Lethal

SEMA3C

NM_006379

12

25

40

1.936

Growth postselection

SERPINH1

NM_001235

26

32

25

3.187

Lethal

SLC6A4

NM_001045

17

29

36

2.142

Growth postselection

SNN

NM_003498

24

30

3

11.523

Lethal

TMEM14C

NM_016462

33

32

7

5.884

Lethal

TMEM9B

NM_020644

43

23

30

2.556

Lethal

TUFT1

NM_020127

25

20

4

7.399

Lethal

  

/47

/47

/44

  
  1. aThe relative rank of target genes in the primary small interfering RNA (siRNA) screen, the median relative rank in the secondary siRNA screen and the relative rank in the three-dimensional acinar growth assay are displayed. The fold decrease in structure formation for each target gene is displayed for each siRNA relative to the control condition. The effect of infection with an independent lentiviral short-hairpin (shRNA) clone against each target gene is shown after selection with puromycin (resistance marker within lentiviral construct) as a binary effect (lethal or growth postselection).
Back to article page

Breast Cancer Research

ISSN: 1465-542X

Contact us