Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.19.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89175	0.475
27DAP/17DAP	1.02212	0.926
39DAP/27DAP	0.99488	0.798
41DAP/39DAP	1.68013	0.403
42DAP/41DAP	1.06356	0.994
43DAP/42DAP	0.97703	0.91
47DAP/43DAP	0.89299	0.568
52DAP/47DAP	1.72458	0.493
57DAP/52DAP	0.78122	0.7

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13956	0.032
17DAP/reference	0.96733	0.474
27DAP/reference	0.96841	0.595
39DAP/reference	0.87998	0.141
41DAP/reference	0.97751	0.667
42DAP/reference	1.15866	0.002
43DAP/reference	0.95993	0.464
47DAP/reference	1.11835	0.052
52DAP/reference	1.09633	0.176
57DAP/reference	1.03457	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09689	0.569
27DAP/17DAP	1.02523	0.915
39DAP/27DAP	1.09004	0.57
41DAP/39DAP	1.25943	0.674
42DAP/41DAP	0.89771	0.379
43DAP/42DAP	1.41016	0.094
47DAP/43DAP	1.07051	0.853
52DAP/47DAP	0.91866	0.671
57DAP/52DAP	1.14767	0.276
57DAP/7DAP	1.33486	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84534	0.115
17DAP/reference	0.80292	0.013
27DAP/reference	0.92213	0.051
39DAP/reference	0.88139	0.021
41DAP/reference	0.83107	0.056
42DAP/reference	0.81216	0.011
43DAP/reference	0.87593	0.115
47DAP/reference	1.01764	0.996
52DAP/reference	0.8191	0.083
57DAP/reference	0.84586	0.097

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17471	0.241
17DAP/reference	1.13421	0.448
27DAP/reference	1.07806	0.507
39DAP/reference	1.30621	0.024
41DAP/reference	1.14169	0.262
42DAP/reference	1.10198	0.466
43DAP/reference	1.32461	0.073
47DAP/reference	1.21613	0.023
52DAP/reference	1.03029	0.838
57DAP/reference	1.09768	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91609	0.127
17DAP/reference	0.92985	0.433
27DAP/reference	0.77359	0.039
39DAP/reference	0.80833	0.025
41DAP/reference	0.85499	0.055
42DAP/reference	0.96489	0.552
43DAP/reference	0.91702	0.246
47DAP/reference	1.06474	0.48
52DAP/reference	2.21059	0.398
57DAP/reference	1.1464	0.233

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15851	0.966
26DAP/20DAP	0.7406	0.244
34DAP/26DAP	1.36666	0.819
51DAP/34DAP	0.88609	0.508
52DAP/51DAP	1.18221	0.651
53DAP/52DAP	1.43075	0.517
55DAP/53DAP	1.10862	0.576
57DAP/55DAP	1.07902	0.927
62DAP/57DAP	1.04232	1
68DAP/62DAP	1.16203	1
68DAP/14DAP	1.52837	0.074

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73625	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.56177	0.017
Immature Eggplant/Mature Eggplant	1.2529	0.215
Ripe Pepper/Ripe Tomato	0.40343
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15916	1
1-1-2/M82	N/A	N/A
12-2/M82	0.92426
12-4/M82	0.80854	1
1-3/M82	0.87166	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.14422	0.695
3-2/M82	0.94972	0.752
4-1-1/M82	1.27144	0.968
4-1/M82	1.25621	1
4-3-2/M82	0.70102
4-3/M82	N/A	N/A
5-3/M82	0.9191
6-2/M82	0.69465
6-3/M82	N/A	N/A
7-1/M82	1.14674
7-2/M82	0.88741	0.881
9-3-2/M82	0.86479

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14501	0.277
IL2-6/WTpooled	0.65741
IL7-5/WTpooled	1.19832	1
IL7-3/WTpooled	1.31477
IL12-4/WTpooled	1.46765	0.386
IL1-4/WTpooled	1.0528	1
WT/WTpooled	0.89936	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	1.25626

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02699	0.921
DC3000/delta hrp 6h	0.42488
DC3000/delta hrp 12h	1.12803	1
DC3000/delta hrp 24h	1.06198	0.595

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	1.51779	0.693
Exp 60h	1.41251	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05326	1
Var 0h	1.22947	0.936
Var 12h I row2-row1	1.00642	1
Var 12h NI row2-row1	1.0186	1
Var 36h I row2-row1	0.77617	0.575
Var 36h NI row2-row1	0.61326	0.706
Var 60h I row2-row1	1.11457	0.502
Var 60h NI row2-row1	1.25107	1
Time course 0hI-0hNI	1.23187	0.486
Time course 12hI-12hNI	1.08913	0.65
Time course 36hI-36hNI	1.01951	0.783
Time course 60hI-60hNI	1.27433	0.495

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)	1.20713	0.261
transgenic ySAMdc/azygous control (breaker)	0.64126	0.131
transgenic ySAMdc/azygous control (red)	1.06702	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05781	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76779	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83473	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.45596	0.164