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Table 3 Annotation enrichment of genes regulated by either 0.5 μM or 10 μM 20E or 0.0625 μM PoA

From: Genome-wide examination of the transcriptional response to ecdysteroids 20-hydroxyecdysone and ponasterone A in Drosophila melanogaster

Group

Response

# Genes in Group with Valid Identifier/Total # in Group

Category

Term

p-value

Number of Genes from Group Annotated with Term

   

MF

catalytic activity

9.35E-03

18

   

BP

positive regulation of translation

2.84E-02

2

1

Common to all

three conditions

tested

30/35

BP

protein metabolic process

2.84E-02

12

   

BP

primary metabolic process

2.96E-02

19

   

MF

hydrolase activity

3.81E-02

10

   

BP

response to temperature stimulus

4.16E-03

4

2

Induced by

both PoA

&10 μM 20E

54/58

SP

DNA binding

1.40E-02

7

   

BP

lipid transport

2.87E-02

3

   

CC

intracellular part

1.34E-02

21

3

Repressed

by both PoA & 10 μM 20E

46/54

BP

protein folding

1.99E-02

4

   

BP

generation of precursor metabolites and energy

2.94E-02

6

   

CC

mitochondrial respiatory chain

3.63E-02

3

   

CC

organelle part

6.17E-04

21

   

CC

organelle membrane

3.47E-03

9

4

Induced by PoA

87/89

CC

cytoplasm

4.16E-03

22

   

BP

intracellular protein transport

1.08E-02

8

   

SP

ribonucleoprotein

1.17E-02

5

   

BP

cytoplasmic sequestering of transcription factor

2.55E-02

2

   

BP

developmental process

2.39E-06

48

   

MF

nucleoside-triphosphatase activity

1.84E-05

20

   

BP

cell differentiation

1.86E-05

31

   

MF

hydrolase activity, acting on acid anhydrides

2.84E-05

20

   

BP

gamete generation

3.68E-05

20

   

BP

sexual reproduction

5.17E-05

20

   

BP

anatomical structure development

6.51E-05

36

5

Repressed by PoA

133/145

BP

organelle organization and biogenesis

1.98E-04

27

   

BP

neuron development

2.00E-04

13

   

BP

system development

2.08E-04

31

   

MF

helicase activity

9.13E-04

8

   

BP

induction of programmed cell death

1.16E-03

6

   

MF

ATPase activity

1.47E-03

13

   

BP

instar larval or pupal development

2.10E-03

16

   

BP

organ development

3.44E-03

24

   

BP

immune system development

4.29E-03

6

   

BP

DNA packaging

9.87E-03

8

   

BP

response to ecdysone

3.73E-02

3

  1. Expression differences are relative to the 0.5 μM 20E dataset (i.e. "induced by PoA" indicates genes that were more greatly induced by 0.0625 μM PoA than by 0.5 μM 20E). DAVID (http://david.abcc.ncifcrf.gov/) was used to identify enriched annotation categories among groups of genes that responded similarly to one or more of the hormone treatments examined in this study (see Additional file 4: Genes identified as part of the transcriptional response to either 20E or PoA). The modified Fisher Exact p-value represents the probability that the number of genes associated with an annotation term in the sample list is random compared to the occurrence of the term in the all of the genes on the array used for the analysis (12kv1)). (BP) biological process; (MF) molecular function; (CC) cellular component; (SP) Swiss Prot Keywords; (INT) Interpro Name; (UP) UniProt Sequence Feature.
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BMC Genomics

ISSN: 1471-2164

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