Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3193	0.325
27DAP/17DAP	2.89687	0.128
39DAP/27DAP	3.55554	0.025
41DAP/39DAP	1.7343	0.212
42DAP/41DAP	1.46018	0.109
43DAP/42DAP	0.90398	0.815
47DAP/43DAP	1.46513	0.459
52DAP/47DAP	0.77881	0.455
57DAP/52DAP	1.72433	0.87

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61658	0.024
17DAP/reference	0.64512	0.008
27DAP/reference	1.16608	0.478
39DAP/reference	1.43302	0.054
41DAP/reference	1.26186	0.024
42DAP/reference	1.37233	0.003
43DAP/reference	2.03551	0.007
47DAP/reference	1.72723	0.001
52DAP/reference	1.77165	0.012
57DAP/reference	2.13209	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01831	1
27DAP/17DAP	1.03184	0.942
39DAP/27DAP	2.58353	0.07
41DAP/39DAP	0.48725	0.013
42DAP/41DAP	1.65734	0.003
43DAP/42DAP	1.83332	0.018
47DAP/43DAP	0.86063	0.219
52DAP/47DAP	1.09813	0.713
57DAP/52DAP	0.70373	0.179
57DAP/7DAP	3.05336	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72013	0.073
17DAP/reference	0.82358	0.072
27DAP/reference	1.14015	0.371
39DAP/reference	1.34373	0.011
41DAP/reference	1.10307	0.593
42DAP/reference	1.46818	0.1
43DAP/reference	1.34401	0.012
47DAP/reference	1.89738	0.016
52DAP/reference	1.69445	0.012
57DAP/reference	1.05911	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73729	0.028
17DAP/reference	0.77712	0.005
27DAP/reference	0.63202	0.014
39DAP/reference	0.85954	0.136
41DAP/reference	0.80069	0.105
42DAP/reference	0.91582	0.289
43DAP/reference	0.91925	0.37
47DAP/reference	1.48608	0.076
52DAP/reference	0.68072	0.006
57DAP/reference	1.17531	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80655	0.147
17DAP/reference	0.79126	0.167
27DAP/reference	0.89471	0.14
39DAP/reference	0.86124	0.046
41DAP/reference	1.14165	0.074
42DAP/reference	1.3741	0.02
43DAP/reference	1.27493	0.025
47DAP/reference	1.37117	0.006
52DAP/reference	1.21816	0.262
57DAP/reference	1.71562	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1646	0.966
26DAP/20DAP	0.85067	1
34DAP/26DAP	0.85243	0.777
51DAP/34DAP	1.16442	0.271
52DAP/51DAP	0.78971	1
53DAP/52DAP	1.07287	0.998
55DAP/53DAP	1.08211	0.703
57DAP/55DAP	1.05807	1
62DAP/57DAP	0.97274	0.681
68DAP/62DAP	0.70229	0.245
68DAP/14DAP	1.3365	0.125

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	7.21056	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.10439	0.06
Mature Green Tomato/Ripe Tomato	0.26287	0.017
Immature Eggplant/Mature Eggplant	29.9913
Ripe Pepper/Ripe Tomato	0.30072	0.224
Mature Eggplant/Ripe Tomato	0.04337	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02776	0.742
1-1-2/M82	1.06472	1
12-2/M82	1.03009	1
12-4/M82	1.05633	0.655
1-3/M82	1.44161	0.248
2-1-1/M82	0.99906	1
2-1/M82	1.18205	1
2-6/M82	1.17047	0.594
3-2/M82	1.23594
4-1-1/M82	1.42707	1
4-1/M82	1.1456	1
4-3-2/M82	1.30935
4-3/M82	1.47987	1
5-3/M82	1.11141	1
6-2/M82	1.17013	1
6-3/M82	1.00311	1
7-1/M82	0.96936	0.509
7-2/M82	0.93958	0.434
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.96635

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03696	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.16371	1
DC3000/delta hrp 24h	1.05588	0.411

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93016
Var 0h	1.03571	0.782
Var 12h I row2-row1	1.13645	0.235
Var 12h NI row2-row1	0.94408	0.713
Var 36h I row2-row1	0.63687
Var 36h NI row2-row1	1.02862	1
Var 60h I row2-row1	1.00872	1
Var 60h NI row2-row1	0.99237	1
Time course 0hI-0hNI	1.05146	1
Time course 12hI-12hNI	1.09091	0.734
Time course 36hI-36hNI	0.77487	0.323
Time course 60hI-60hNI	0.8373	0.161

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)	0.76643	0.299
transgenic ySAMdc/azygous control (breaker)	1.29768	1
transgenic ySAMdc/azygous control (red)	1.0312	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94413	0.172

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0655	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.7299	0.333
Manapal/WT (red)	0.66536	0.188