Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.2.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76667	0.097
27DAP/17DAP	1.05904	0.916
39DAP/27DAP	0.96874	0.7
41DAP/39DAP	0.87158	0.485
42DAP/41DAP	1.16809	0.871
43DAP/42DAP	0.92831	0.813
47DAP/43DAP	0.96511	0.779
52DAP/47DAP	1.23461	0.541
57DAP/52DAP	1.3522	0.902

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88523	0.05
17DAP/reference	1.05699	0.193
27DAP/reference	0.99491	0.797
39DAP/reference	0.95944	0.467
41DAP/reference	0.8899	0.114
42DAP/reference	0.91462	0.048
43DAP/reference	0.93878	0.073
47DAP/reference	1.05724	0.264
52DAP/reference	1.10268	0.633
57DAP/reference	1.15643	0.029

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16313	0.379
27DAP/17DAP	1.171	0.617
39DAP/27DAP	1.02604	0.874
41DAP/39DAP	1.10483	0.753
42DAP/41DAP	0.93891	0.576
43DAP/42DAP	0.74336	0.03
47DAP/43DAP	1.02477	0.941
52DAP/47DAP	1.12074	0.619
57DAP/52DAP	1.05527	0.838
57DAP/7DAP	0.86506	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65544	0.03
17DAP/reference	1.32502	0.059
27DAP/reference	1.14314	0.246
39DAP/reference	1.35293	0.077
41DAP/reference	1.32771	0.019
42DAP/reference	1.57882	0.011
43DAP/reference	1.46085	0.01
47DAP/reference	1.23581	0.345
52DAP/reference	1.33858	0.023
57DAP/reference	1.32381	0.046

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18511	0.198
17DAP/reference	0.95877	0.253
27DAP/reference	1.02382	0.961
39DAP/reference	0.9736	0.428
41DAP/reference	0.90041	0.073
42DAP/reference	0.92608	0.108
43DAP/reference	0.83993	0.054
47DAP/reference	0.95489	0.261
52DAP/reference	0.94674	0.171
57DAP/reference	0.87682	0.026

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.53064	0.016
17DAP/reference	1.16375	0.189
27DAP/reference	1.25047	0.105
39DAP/reference	1.3589	0.081
41DAP/reference	1.21552	0.205
42DAP/reference	1.34262	0.072
43DAP/reference	1.09523	0.768
47DAP/reference	0.85155	0.12
52DAP/reference	1.26238	0.115
57DAP/reference	1.22961	0.036

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94382	1
26DAP/20DAP	1.65348	0.098
34DAP/26DAP	0.96102	0.944
51DAP/34DAP	0.95248	0.681
52DAP/51DAP	0.85341	1
53DAP/52DAP	0.82524	0.087
55DAP/53DAP	0.83148	0.252
57DAP/55DAP	1.20944	0.643
62DAP/57DAP	2.32897
68DAP/62DAP	1.44224	0.206
68DAP/14DAP	1.30008	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99234	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.45601	0.058
Mature Green Tomato/Ripe Tomato	1.34211	0.209
Immature Eggplant/Mature Eggplant	0.78598	0.105
Ripe Pepper/Ripe Tomato	1.6449	1
Mature Eggplant/Ripe Tomato	1.24908	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.75407	0.605
1-1-2/M82	1.14406	0.977
12-2/M82	0.79522	0.862
12-4/M82	0.71856	0.619
1-3/M82	1.85959	0.479
2-1-1/M82	0.97043	1
2-1/M82	0.83974	0.74
2-6/M82	0.85026	1
3-2/M82	1.1126	0.967
4-1-1/M82	1.20286	1
4-1/M82	1.33504	1
4-3-2/M82	1.05461	1
4-3/M82	1.10991	1
5-3/M82	1.23979	0.572
6-2/M82	0.8164	0.497
6-3/M82	1.00395	1
7-1/M82	1.08099	1
7-2/M82	1.2186	0.324
9-3-2/M82	1.07935

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94778	1
IL2-6/WTpooled	1.11232	0.788
IL7-5/WTpooled	0.93714	1
IL7-3/WTpooled	0.74956	1
IL12-4/WTpooled	0.87832	0.71
IL1-4/WTpooled	0.87538	0.562
WT/WTpooled	0.95142	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	1.18077	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94451	1
DC3000/delta hrp 6h	1.08761	1
DC3000/delta hrp 12h	1.00313	1
DC3000/delta hrp 24h	0.91986	0.447

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	0.81807	1
Exp 36h	1.16343	0.693
Exp 60h	1.23007	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0065	1
Var 0h	1.19073	0.374
Var 12h I row2-row1	1.12254	0.736
Var 12h NI row2-row1	1.09558	1
Var 36h I row2-row1	1.09287	0.908
Var 36h NI row2-row1	0.81629	0.61
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.85142	0.431
Time course 0hI-0hNI	0.86478	0.162
Time course 12hI-12hNI	1.00546	1
Time course 36hI-36hNI	1.48526	0.044
Time course 60hI-60hNI	1.18167	0.575

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)	0.95254	0.428
transgenic ySAMdc/azygous control (breaker)	1.39958	0.248
transgenic ySAMdc/azygous control (red)	1.13452	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.36475	0.045

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58226	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8245	1
Manapal/WT (break)	1.10211	1
Manapal/WT (red)	1.38887	0.15