Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88095	0.456
27DAP/17DAP	1.09283	0.874
39DAP/27DAP	1.27154	0.841
41DAP/39DAP	1.11526	0.964
42DAP/41DAP	1.11115	0.903
43DAP/42DAP	0.87407	0.712
47DAP/43DAP	1.40193	0.213
52DAP/47DAP	1.75354	0.418
57DAP/52DAP	1.13951	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81104	0.103
17DAP/reference	0.91187	0.18
27DAP/reference	0.94293	0.406
39DAP/reference	0.93653	0.412
41DAP/reference	0.87773	0.114
42DAP/reference	0.84924	0.006
43DAP/reference	0.97324	0.675
47DAP/reference	0.94152	0.224
52DAP/reference	0.99634	0.668
57DAP/reference	1.10387	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.42564	0.34
27DAP/17DAP	1.01113	0.969
39DAP/27DAP	1.03668	1
41DAP/39DAP	1.13338	0.868
42DAP/41DAP	0.74802	0.303
43DAP/42DAP	1.35145	0.83
47DAP/43DAP	1.23859	0.906
52DAP/47DAP	1.15619	0.624
57DAP/52DAP	1.31665	0.308
57DAP/7DAP	1.29127	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89175	0.203
17DAP/reference	1.02056	0.693
27DAP/reference	1.02261	0.974
39DAP/reference	0.73789	0.021
41DAP/reference	0.79528	0.023
42DAP/reference	0.75747	0.05
43DAP/reference	0.98656	0.555
47DAP/reference	0.9399	0.383
52DAP/reference	0.67773	0.027
57DAP/reference	0.80716	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90296	0.296
17DAP/reference	0.98073	0.642
27DAP/reference	0.93855	0.292
39DAP/reference	0.95805	0.359
41DAP/reference	1.05945	0.573
42DAP/reference	0.78515	0.013
43DAP/reference	0.96858	0.539
47DAP/reference	0.86771	0.014
52DAP/reference	0.92665	0.055
57DAP/reference	0.89047	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18182	0.062
17DAP/reference	0.88014	0.167
27DAP/reference	0.98363	0.624
39DAP/reference	0.87575	0.058
41DAP/reference	0.87876	0.185
42DAP/reference	0.94614	0.552
43DAP/reference	1.03311	0.923
47DAP/reference	1.00579	0.687
52DAP/reference	0.74645	0.084
57DAP/reference	0.94477	0.278

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17825	0.966
26DAP/20DAP	0.64813
34DAP/26DAP	2.33934	1
51DAP/34DAP	1.09919	0.869
52DAP/51DAP	1.18499	0.722
53DAP/52DAP	1.23071	0.858
55DAP/53DAP	1.20763	0.696
57DAP/55DAP	1.029	0.923
62DAP/57DAP	0.8025	0.466
68DAP/62DAP	1.07813
68DAP/14DAP	N/A	N/A

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0308	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.30404
Mature Green Tomato/Ripe Tomato	1.58468
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.74881
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.05809
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.82214
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10293
IL2-6/WTpooled	1.18133	0.788
IL7-5/WTpooled	0.89597	1
IL7-3/WTpooled	1.1598	1
IL12-4/WTpooled	0.94579	1
IL1-4/WTpooled	1.13286	1
WT/WTpooled	0.93312	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.11875	0.853

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11711	0.921
DC3000/delta hrp 6h	2.52749	0.177
DC3000/delta hrp 12h	0.79052	1
DC3000/delta hrp 24h	1.06575	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.33758	1
Exp 36h	1.50956	1
Exp 60h	1.49251	0.399

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.99644	1
Var 0h	0.95693	1
Var 12h I row2-row1	0.83792
Var 12h NI row2-row1	1.33559	1
Var 36h I row2-row1	1.28708	0.742
Var 36h NI row2-row1	0.59369	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.8057	0.904
Time course 0hI-0hNI	1.19112	0.603
Time course 12hI-12hNI	0.88209	0.65
Time course 36hI-36hNI	2.26056	0.722
Time course 60hI-60hNI	0.94355	1

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.00737	1
transgenic ySAMdc/azygous control (breaker)	1.01427	1
transgenic ySAMdc/azygous control (red)	0.89429	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96715	0.143

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68482	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16866	1
Manapal/WT (break)	1.11376	1
Manapal/WT (red)	N/A	N/A