Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.3.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17161	0.838
27DAP/17DAP	1.08789	0.916
39DAP/27DAP	0.9665	0.733
41DAP/39DAP	1.2949	0.814
42DAP/41DAP	1.12183	0.931
43DAP/42DAP	1.06389	1
47DAP/43DAP	1.12176	0.668
52DAP/47DAP	0.85708	0.618
57DAP/52DAP	1.16044	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7736	0.046
17DAP/reference	0.62259	0.011
27DAP/reference	0.87388	0.137
39DAP/reference	0.78699	0.121
41DAP/reference	0.67915	0.018
42DAP/reference	0.93475	0.196
43DAP/reference	0.93138	0.331
47DAP/reference	0.94627	0.322
52DAP/reference	1.59585	0.008
57DAP/reference	1.57491	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45717	0.196
27DAP/17DAP	0.97902	0.943
39DAP/27DAP	1.13941	0.654
41DAP/39DAP	0.96765	0.986
42DAP/41DAP	0.74098	0.113
43DAP/42DAP	0.96635	0.751
47DAP/43DAP	0.89792	0.712
52DAP/47DAP	0.76487	0.177
57DAP/52DAP	1.77489	0.5
57DAP/7DAP	1.49408	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07625	0.664
17DAP/reference	1.10153	0.269
27DAP/reference	0.98013	0.53
39DAP/reference	1.14761	0.157
41DAP/reference	1.09912	0.507
42DAP/reference	1.1319	0.534
43DAP/reference	1.03844	0.707
47DAP/reference	1.12181	0.571
52DAP/reference	1.40141	0.01
57DAP/reference	1.47666	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.58394	0.013
17DAP/reference	0.47359	0.005
27DAP/reference	0.88125	0.188
39DAP/reference	1.10676	1
41DAP/reference	1.01492	0.749
42DAP/reference	0.96823	0.392
43DAP/reference	0.67261	0.046
47DAP/reference	0.73142	0.015
52DAP/reference	0.81853	0.021
57DAP/reference	0.5176	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00712	0.804
17DAP/reference	0.87954	0.313
27DAP/reference	1.02818	0.967
39DAP/reference	1.07171	0.365
41DAP/reference	1.36009	0.03
42DAP/reference	1.23623	0.117
43DAP/reference	1.32446	0.049
47DAP/reference	0.90794	0.269
52DAP/reference	1.01409	0.888
57DAP/reference	2.04763	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.50991	0.395
26DAP/20DAP	1.06128	1
34DAP/26DAP	1.30461	0.819
51DAP/34DAP	1.30549	0.387
52DAP/51DAP	0.92568	1
53DAP/52DAP	0.71484	0.073
55DAP/53DAP	1.34823	0.981
57DAP/55DAP	0.82687	0.398
62DAP/57DAP	1.58569	0.081
68DAP/62DAP	6.3604	0.014
68DAP/14DAP	9.43729	0.016

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92046	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58473	0.14
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.77234	N/A
Ripe Pepper/Ripe Tomato	1.17857	0.251
Mature Eggplant/Ripe Tomato	0.31953	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.53073	N/A
1-1-2/M82	1.04662	1
12-2/M82	N/A	N/A
12-4/M82	0.83738	N/A
1-3/M82	N/A	N/A
2-1-1/M82	1.18563	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	0.937	0.642
6-2/M82	N/A	N/A
6-3/M82	0.68481	N/A
7-1/M82	0.84896	N/A
7-2/M82	0.81476	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	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	N/A	N/A

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	0.99337	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02737	0.921
DC3000/delta hrp 6h	1.42772	1
DC3000/delta hrp 12h	0.99242	1
DC3000/delta hrp 24h	1.11936	0.633

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	1.04136	1
Exp 36h	N/A	N/A
Exp 60h	1.77971	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.86745	N/A
Var 0h	0.72483	0.332
Var 12h I row2-row1	1.31182	0.283
Var 12h NI row2-row1	0.70976	1
Var 36h I row2-row1	1.62127	0.601
Var 36h NI row2-row1	1.02999	0.852
Var 60h I row2-row1	1.14661	1
Var 60h NI row2-row1	0.5588	1
Time course 0hI-0hNI	0.88362	0.702
Time course 12hI-12hNI	1.0499	0.803
Time course 36hI-36hNI	2.71217	0.007
Time course 60hI-60hNI	2.58711	0.008

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)	1.13426	0.318
transgenic ySAMdc/azygous control (breaker)	0.88146	0.134
transgenic ySAMdc/azygous control (red)	1.00542	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96861	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86034	0.238

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)	1.05766	1
Manapal/WT (red)	0.92276	0.728