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Table 5 LongSAGE tags corresponding to genes known to increase expression in response to androgen in LNCaP cellsa, n

From: Identification of novel androgen-responsive genes by sequencing of LongSAGE libraries

 

Tags/100,000d, t

    

LongSAGE Tag Sequence

Vehicle

R1881

Foldc, dChange

RefSeq/Ensembl Access. No.

HGNC Gene Symbol

Descriptionφ

GTGACAAGTGACAGAGT

1

19

20

NM_007011

ABHD2

Abhydrolase domain containing 2, transcript variant 1

ACGTCACCATTTTTAAC

1

24

20

NM_004457

ACSL3

Acyl-CoA synthetase long-chain family member 3, transcript variant 1

TACTTTATAAGTATTGG

14

59

4.2

NM_006988

ADAMTS1*

ADAM metallopeptidase with thrombospondin type 1 motif, 1

TAGCTCTATGGGGGGAG

35

75

2.1

NM_000701

ATP1A1

ATPase, Na+/K+ transporting, alpha 1 polypeptide, transcript variant 1

GTTGTGGTTAATCTGGT

48

109

2.3

NM_004048

B2M

Beta-2-microglobulin

ACTTAAGGAACTTATCT

14

42

3.0

NM_015415

BRP44

Brain protein 44

AAAGGAAAATAAAAATT

3

27

9

NM_018455

CENPN*

Centromeric protein N

CTGTGATGTGACTCCTG

5

30

6

NM_030806

Clorf21

Chromosome 1 open reading frame 21

CAGATGAGATGTGAGCT

5

33

7

NM_130898

CREB3L4*

cAMP responsive element binding protein 3-like-4

TGTTTATCCTAAACTGA

21

115

5.5

NM_020548

DEI

Diazepam binding inhibitor (GAB A receptor modulator, acyl-Coenzyme A binding protein)

TCCCCGTGGCTGTGGGG

106

356

3.36

NM_014762

DHCR24

24-dehydrocholesterol reductase

GAAATTAGGGAAGCCTT

9

34

4

NM_015036

ENDOD1

Endonuclease domain containing 1

AGATCCTACTTAGTATG

16

51

3.2

NM_004462

FDFT1

Farnesyl-diphosphate farnesyltransferase 1

GTTCCAGTGAGGCCAAG

3

50

20

NM_004117

FKBP5*

FK506 binding protein 5

ACCTAGCCACTGCTGGG

1

24

20

NM_002247

KCNMA1

Potassium large conductance calcium-activated channel, subfamily M, alpha member 1, transcript variant 2

GGATGGGGATGAAGTAA

50

366

7.3

NM_001648

KLK3*

Kallikrein 3, (prostate-specific antigen), transcript variant 1

CCTCCAGCTACAAAACA

35

223

6.4

NM_002273

KRT8

Keratin 8

TAAAATATTGAAGTGTC

NDb

42

40

NM_015541

LRIG1*

Leucine-rich repeats and immunoglobulin-like domains 1

TCCCTGAGCACCATTGC

ND

35

40

NM_015261

NCAPD3*

Non-SMC condensin complex subunit D3

GGACTTTCCTTCCCTCT

1

72

70

NM_006096

NDRG1

N-myc downstream regulated gene 1

TTTAGGTAAACGAAAGC

19

56

2.9

NM_014445

N/Aq

Stress-associated ER protein 1

AGGTTTTGCCTCATTCC

13

38

2.9

ENSG00000196930

N/Aq

Similar to Vesicle-associated membrane protein-associated protein A mRNA

ATGCAGCCATATGGAAG

20

208

10

NM_002539

ODC1

Ornithine decarboxylase 1

GCCAAGGGGCCAGCTGC

17

45

2.6

NM_002541

OGDH

Oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide), nuclear gene encoding mitochondrial protein, transcript variant 1

TAATTTTTACTTTGTAC

5

39

8

NM_017906

PAK1IP1*

PAK1 interacting protein 1

TATGTAATATGCTTTCT

27

164

6.1

NM_003711

PPAP2A

Phosphatidic acid phosphatase type 2A, transcript variant 1

AAACACCAACAACTGGG

5

31

6

NM_003711

PPAP2A

Phosphatidic acid phosphatase type 2A isoforms 1 and 2

GTGTTTACGTGATCCAC

1

18

20

NM_004578

RAB4A

RAB4A, member RAS oncogene family

TATGTATAAATGGACCT

ND

16

20

NM_021205

RHOU*

Ras homolog gene family, member U

TTTGAAATGAGGTCTGT

14

48

3.4

NM_002970

SAT

Spermidine/spermine N1-acetyltransferase

GCAACAGCAATAGGATT

3

22

7

NM_014302

SEC61G

Sec61 gamma subunit, transcript variant 1

GCGCTGGAGTGAGATGG

59

126

2.1

NM_031287

SF3B5

Splicing factor 3B, subunit 5, l0kDa

GGATTTGAACATATGAA

ND

13

10

NM_033102

SLC45A3

Solute carrier family 45, member 3

ACCTTGTGCCCGATTCT

47

238

5.1

NM_003104

SORD

Sorbitol dehydrogenase

AAAATCTGCCACTCAGG

ND

1 2

10

NM_003104

SORD

Sorbitol dehydrogenase

GTGCAGGGAGACATCTG

3

55

20

NM_012391

SPDEF

SAM pointed domain containing ets transcription factor

TTAAGGGATGATGGCTT

ND

1 2

10

NM_024636

STEAP4

STEAP family member 4

TACTACAGCTATATTTG

1 6

52

3. 3

NM_016192

TMEFF2

Transmembrane protein with EGF-like and 2 follistatin-like domains 2

TGATGTCTGGTCTGAAT

1

1 7

20

NM_020182

TMEPAI

Transmembrane, prostate androgen induced RNA, transcript variant 1

CAAATAAATTATGCGAT

5

64

10

NM_005656

TMPRSS2

Transmembrane protease, serine 2

TGAAAAGCTTAATAAAT

7

28

4

NM_005079

TPD52

Tumor protein D52, transcript variant 3

TTAAAGATTTAGACACC

10

36

3. 6

ENSG00000140416

TPM1

Tropomyosin 1 apha chain

TTCTCTACACAATTGTA

6

36

6

NM_006022

TSC22D1

TSC22 domain family, member 1, transcript variant 1

  1. a Statistics according to the Audic and Claverie test statistic (p ≤ 0.001)
  2. b ND, not detected
  3. c ND tags were assigned a value of 1 when calculating fold
  4. d Appropriate significant figures are displayed
  5. n Ambiguously mapped tags and tags with a fold change less than 2-fold have been excluded from the table
  6. q N/A = there is no HGNC approved gene symbol for this tag
  7. t Tag count per 100,000 = (observed tag count/total tags in the library) × 100,000
  8. φ In cases where a tag mapped to >1 transcript variant of the same gene the RefSeq accession number for transcript variant 1 was displayed
  9. * Gene further characterized in this paper
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BMC Genomics

ISSN: 1471-2164

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