Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58942	0.173
27DAP/17DAP	1.23279	0.833
39DAP/27DAP	1.49933	0.347
41DAP/39DAP	0.99567	1
42DAP/41DAP	0.95372	1
43DAP/42DAP	1.10562	0.937
47DAP/43DAP	0.99925	0.926
52DAP/47DAP	1.28511	0.543
57DAP/52DAP	1.39063	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75818	0.073
17DAP/reference	0.95742	0.474
27DAP/reference	1.05913	0.925
39DAP/reference	0.9933	0.885
41DAP/reference	1.01532	1
42DAP/reference	0.77415	0.004
43DAP/reference	1.0358	1
47DAP/reference	0.93993	0.224
52DAP/reference	0.92085	0.258
57DAP/reference	0.97789	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.83896	0.258
27DAP/17DAP	0.89857	0.821
39DAP/27DAP	0.64826	0.033
41DAP/39DAP	1.12406	0.88
42DAP/41DAP	1.06361	1
43DAP/42DAP	1.28599	0.664
47DAP/43DAP	0.95495	0.787
52DAP/47DAP	0.95186	0.824
57DAP/52DAP	1.4181	0.388
57DAP/7DAP	1.01601	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8207	0.138
17DAP/reference	0.89175	0.253
27DAP/reference	1.00161	0.614
39DAP/reference	0.69469	0.015
41DAP/reference	0.68124	0.022
42DAP/reference	0.66056	0.01
43DAP/reference	0.76713	0.031
47DAP/reference	0.65104	0.032
52DAP/reference	0.67309	0.027
57DAP/reference	0.91264	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91604	0.487
17DAP/reference	0.81391	0.129
27DAP/reference	0.82912	0.115
39DAP/reference	0.7407	0.019
41DAP/reference	0.78799	0.049
42DAP/reference	0.70745	0.023
43DAP/reference	0.97706	0.581
47DAP/reference	0.74705	0.012
52DAP/reference	0.84983	0.06
57DAP/reference	0.86076	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75223	0.027
17DAP/reference	0.85768	0.144
27DAP/reference	0.86607	0.089
39DAP/reference	0.84792	0.054
41DAP/reference	0.86343	0.148
42DAP/reference	0.72275	0.071
43DAP/reference	0.89298	0.061
47DAP/reference	0.99306	0.61
52DAP/reference	1.1381	0.749
57DAP/reference	0.95225	0.453

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12937	0.966
26DAP/20DAP	1.48661	0.499
34DAP/26DAP	1.43853	0.819
51DAP/34DAP	0.78428	0.333
52DAP/51DAP	1.65105	0.044
53DAP/52DAP	0.7408	0.276
55DAP/53DAP	1.10993	0.82
57DAP/55DAP	1.15679	0.969
62DAP/57DAP	1.21803	0.393
68DAP/62DAP	0.90105	0.668
68DAP/14DAP	1.26857	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65975	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	4.39445
Ripe Pepper/Ripe Tomato	0.98031	1
Mature Eggplant/Ripe Tomato	1.06949

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	1.17646	0.694
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	N/A	N/A
3-2/M82	1.01562
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	2.28649	1
5-3/M82	1.00097	1
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	1.06858

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92826	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	3.03077
IL12-4/WTpooled	1.11321
IL1-4/WTpooled	1.13776	1
WT/WTpooled	0.92695	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	0.84009	0.188

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.79328
DC3000/delta hrp 6h	0.8029
DC3000/delta hrp 12h	1.27288	1
DC3000/delta hrp 24h	1.07502	0.821

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	1.48914	0.693
Exp 60h	1.07209	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.90352	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.02537	0.654
Var 12h NI row2-row1	0.94256	0.82
Var 36h I row2-row1	0.99033	1
Var 36h NI row2-row1	0.74675	0.645
Var 60h I row2-row1	1.08723	0.487
Var 60h NI row2-row1	0.87285	0.866
Time course 0hI-0hNI	1.02869	1
Time course 12hI-12hNI	1.00792	1
Time course 36hI-36hNI	0.86458	0.134
Time course 60hI-60hNI	0.81639	0.319

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)	1.00332	1
transgenic ySAMdc/azygous control (breaker)	0.84954	0.173
transgenic ySAMdc/azygous control (red)	0.94628	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98256	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32128	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01634	1
Manapal/WT (break)	1.12838	1
Manapal/WT (red)	0.87763	0.229