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Table 7 LongSAGE tags corresponding to genes not previously reported 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

Fold Changec, d

RefSeq/Ensembl Access. No.

HGNC Gene Symbol

Descriptionφ

TCTTTATTAGAAAAAAA

NDb

16

20

NM_014265

ADAM28

ADAM metallopeptidase domain 28, transcript variant 1k

AGGAGCAAAGGAAGGGG

51

107

2.1

NM_000713

BLVRB*

Biliverdin reductase B (flavin reductase (NADPH))

TTTTGGGGGCTTTTAGC

16

44

2.8

NM_198446

Clorf122*

Chromosome 1 open reading frame 122

GGGCCCCAAAGCACTGC

22

69

3.1

NM_199249

C19orf48*

Chromosome 19 open reading frame 48

CCCCAGTTGCTGATCTC

24

60

2.5

NM_001003962

CAPNS1*

Calpain, small subunit 1, transcript variant 2

CTTAAGAAAAATGCACT

1

23

20

NM_018948

ERRFI1 *

ERBB receptor feedback inhibitor 1

TACAGTATGTTCAAAGT

13

52

4.0

NM_002065

GLUL*

Glutamate-ammonia ligase (glutamine synthetase), transcript variant 1g, i

TTAATAGTGGGGCTTTC

10

39

3.9

NM_022130

GOLPH3*

Golgi phosphoprotein 3 (coat protein)

GCCAGGGCGGGCCACTG

ND

16

20

NM_178580

HM13*

Histocompatibility (minor) 13, transcript variant 2

GAGGAAGAAGAAGCAGC

ND

14

10

NM_003299

HSP90B1*

Heat shock protein 90kDa beta (Grp94), member 1

GGCAAGGGGGGTCCCCA

1

20

20

NM_002273

KRT8

Keratin 8m

ACTCCAAAAAAAAAAAA

41

81

2.0

XM_376154

N/Aq

Similar to 40S ribosomal protein S15 (RIG protein), transcript variant 1

GGGTTGGCTTGAAACCA

6

30

5

ENSG00000210151

N/A

Non-coding predicted mitochondrial gene m

GAGAGCTCCCGTGAGTG

72

122

1.7

NC_001807P

N/A

Intergenic region of mitochondrial genome

TCGGACGTACATCGTTA

40

223

5.6

No map

N/A

N/A

GCAAAAAAATCAAGTCT

22

66

3.0

NM_018946

NANS*

N-acetylneuraminic acid phosphate synthase (sialic acid synthase)

TCTTTTAGCCAATTCAG

2

36

20

NM_006167

NKX3-1

NK3 transcription factor related, locus 1 m

TACTTTTGGCCTGGCTG

6

35

6

NM_173854

SLC41A1*

Solute carrier family 41, member 1

GAGAGCCTCAGAATGGG

5

26

5

NM_016281

TAOK3*

TAO kinase 3

GAAGTTATGAAGATGCT

41

106

2.6

NM_030752

TCP1*

T-complex protein 1, transcript variant 1

CAGTTCTCTGTGAAATC

40

93

2.3

NM_016127

TMEM66*

Transmembrane protein 66

ATGGCTTTGTTTTGGTT

ND

14

10

NM_201624

USP33*

Ubiquitin specific protease 33, transcript variant 2

  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 change
  4. d Appropriate significant figures are displayed
  5. e Gene family, but not this family member, previously described to change expression in response to androgens
  6. g Protein known to change expression in reponse to androgens
  7. h Gene known to change expression in response to androgens, but in the opposite direction as reported here
  8. i Gene known to change expression in response to androgens in cells other than prostate
  9. k Tag has a single base pair mutation, insertion, or deletion with respect to gene map
  10. m Tag maps to the strand opposite of the gene
  11. n Ambiguously mapped tags and tags with a fold change less than 2-fold have been excluded from the table
  12. p NC_001807, refers to the complete genome of mitochondria in humans
  13. All mitochondrial genes in the RefSeq database are assigned the same accession number by NCBI q N/A, there is no HGNC approved gene symbol or description for this tag t Tag count per 100,000 = (observed tag count/total tags in the library) × 100,000
  14. 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 * Gene further characterized in this paper
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BMC Genomics

ISSN: 1471-2164

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