Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89009	0.532
27DAP/17DAP	1.13998	0.845
39DAP/27DAP	1.24665	0.81
41DAP/39DAP	0.93024	0.619
42DAP/41DAP	1.07977	0.931
43DAP/42DAP	0.96914	0.912
47DAP/43DAP	1.18996	0.49
52DAP/47DAP	0.92693	0.771
57DAP/52DAP	1.23748	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90742	0.3
17DAP/reference	0.87036	0.046
27DAP/reference	1.09285	0.587
39DAP/reference	1.01969	1
41DAP/reference	0.78794	0.039
42DAP/reference	1.08784	0.756
43DAP/reference	1.23116	0.025
47DAP/reference	1.39358	0.023
52DAP/reference	1.4597	0.05
57DAP/reference	2.02085	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0597	0.841
27DAP/17DAP	1.00405	0.969
39DAP/27DAP	1.24826	0.324
41DAP/39DAP	1.03163	1
42DAP/41DAP	1.0591	0.927
43DAP/42DAP	0.91184	0.321
47DAP/43DAP	1.00823	0.973
52DAP/47DAP	1.05024	0.819
57DAP/52DAP	1.30604	0.05
57DAP/7DAP	1.18441	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1829	0.298
17DAP/reference	1.04899	1
27DAP/reference	1.1338	0.197
39DAP/reference	1.24655	0.077
41DAP/reference	1.15688	0.136
42DAP/reference	1.49154	0.03
43DAP/reference	1.23692	0.124
47DAP/reference	1.30671	0.155
52DAP/reference	1.21507	0.781
57DAP/reference	1.1146	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84952	0.176
17DAP/reference	0.7961	0.116
27DAP/reference	0.87401	0.167
39DAP/reference	1.15482	0.436
41DAP/reference	1.20532	0.215
42DAP/reference	0.90857	0.108
43DAP/reference	0.84246	0.128
47DAP/reference	1.0436	0.816
52DAP/reference	1.02577	1
57DAP/reference	0.98139	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10839	0.545
17DAP/reference	0.93674	0.462
27DAP/reference	1.29458	0.137
39DAP/reference	1.16156	0.12
41DAP/reference	0.95521	0.459
42DAP/reference	1.08623	0.836
43DAP/reference	1.16023	0.655
47DAP/reference	0.98929	0.61
52DAP/reference	1.05677	0.837
57DAP/reference	1.86562	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98881	1
26DAP/20DAP	1.25259	0.347
34DAP/26DAP	0.89408	0.693
51DAP/34DAP	1.52758	0.032
52DAP/51DAP	0.80642	1
53DAP/52DAP	1.08828	0.845
55DAP/53DAP	0.87269	0.489
57DAP/55DAP	1.03528	1
62DAP/57DAP	0.94071	0.871
68DAP/62DAP	1.60179	0.582
68DAP/14DAP	1.9564	0.125

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75491	0.059

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6548	0.165
Mature Green Tomato/Ripe Tomato	1.15333	0.752
Immature Eggplant/Mature Eggplant	0.73618	0.086
Ripe Pepper/Ripe Tomato	1.26645	0.258
Mature Eggplant/Ripe Tomato	0.85345	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98147	0.961
1-1-2/M82	0.9382	1
12-2/M82	1.0151	1
12-4/M82	0.92516	1
1-3/M82	1.34086
2-1-1/M82	0.79331	0.683
2-1/M82	0.79167	0.74
2-6/M82	0.79932	0.501
3-2/M82	0.80605
4-1-1/M82	1.10279	1
4-1/M82	1.299	0.853
4-3-2/M82	0.91744	1
4-3/M82	1.07106	1
5-3/M82	1.04036	1
6-2/M82	1.1742
6-3/M82	0.98227	1
7-1/M82	0.95835	1
7-2/M82	1.06272	1
9-3-2/M82	1.03105	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.74621	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.83502	1
IL12-4/WTpooled	0.97779	1
IL1-4/WTpooled	1.82383	1
WT/WTpooled	0.92403	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	1.15702	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01257	1
DC3000/delta hrp 6h	1.34573	0.631
DC3000/delta hrp 12h	0.91769	1
DC3000/delta hrp 24h	1.06735	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04872
DC3000 delta B/DC3000 delta AB	0.74232	0.511

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9653	1
Exp 36h	0.89095	0.589
Exp 60h	1.07938	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04899	1
Var 0h	2.9284	0.782
Var 12h I row2-row1	1.06405	0.58
Var 12h NI row2-row1	1.06615	1
Var 36h I row2-row1	0.89469	1
Var 36h NI row2-row1	1.14241	1
Var 60h I row2-row1	1.08554	0.562
Var 60h NI row2-row1	0.86178	0.756
Time course 0hI-0hNI	0.8852	0.254
Time course 12hI-12hNI	1.03026	0.861
Time course 36hI-36hNI	1.34786	0.005
Time course 60hI-60hNI	1.94884	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)	1.11464	0.397
transgenic ySAMdc/azygous control (breaker)	0.97537	1
transgenic ySAMdc/azygous control (red)	0.90364	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70026	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93959	1
Manapal/WT (break)	0.74785	0.333
Manapal/WT (red)	1.03697	1