Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34497	0.498
27DAP/17DAP	1.05332	0.905
39DAP/27DAP	0.93427	0.594
41DAP/39DAP	0.9836	0.883
42DAP/41DAP	1.3477	0.702
43DAP/42DAP	1.0688	1
47DAP/43DAP	1.46582	0.647
52DAP/47DAP	1.10598	0.898
57DAP/52DAP	1.16664	0.817

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23055	0.846
17DAP/reference	0.69055	0.05
27DAP/reference	0.92713	0.538
39DAP/reference	0.88604	0.541
41DAP/reference	1.16018	0.312
42DAP/reference	1.03705	0.501
43DAP/reference	1.11747	0.518
47DAP/reference	1.00915	0.72
52DAP/reference	0.95742	0.489
57DAP/reference	1.14783	0.166

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33298	0.189
27DAP/17DAP	1.12314	0.794
39DAP/27DAP	0.91799	0.616
41DAP/39DAP	0.93617	0.793
42DAP/41DAP	0.9881	0.791
43DAP/42DAP	0.96395	0.709
47DAP/43DAP	0.83588	0.247
52DAP/47DAP	1.15914	0.603
57DAP/52DAP	1.42087	0.265
57DAP/7DAP	1.45898	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88534	0.224
17DAP/reference	0.87137	0.124
27DAP/reference	0.8962	0.215
39DAP/reference	1.00299	1
41DAP/reference	0.83362	0.067
42DAP/reference	1.05419	1
43DAP/reference	0.96746	0.44
47DAP/reference	1.16598	0.604
52DAP/reference	1.09756	0.832
57DAP/reference	0.91598	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79702	0.238
17DAP/reference	0.78999	0.113
27DAP/reference	0.8192	0.292
39DAP/reference	0.79334	0.147
41DAP/reference	1.18919	0.893
42DAP/reference	1.08726	0.488
43DAP/reference	1.10627	0.827
47DAP/reference	0.97683	0.543
52DAP/reference	0.91046	0.351
57DAP/reference	0.8116	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97723	0.566
17DAP/reference	0.93107	0.579
27DAP/reference	0.93526	0.49
39DAP/reference	1.10839	0.512
41DAP/reference	1.37974	0.052
42DAP/reference	1.12562	0.556
43DAP/reference	1.45736	0.25
47DAP/reference	0.7667	0.125
52DAP/reference	1.06681	0.759
57DAP/reference	1.07911	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.5995	0.773
26DAP/20DAP	0.74702	1
34DAP/26DAP	1.72059	1
51DAP/34DAP	0.79962	0.259
52DAP/51DAP	0.83251	1
53DAP/52DAP	1.22724	0.384
55DAP/53DAP	1.05	1
57DAP/55DAP	1.03783	0.997
62DAP/57DAP	0.94213	0.871
68DAP/62DAP	0.95957	0.769
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33134	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.98542	0.835
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	0.95885
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	N/A	N/A
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	0.84394

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.25587
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.16813	0.646
IL1-4/WTpooled	1.28422	1
WT/WTpooled	1.39066	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	1.12322	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88164	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.98301	0.924

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	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92886	1
Var 0h	1.01314	1
Var 12h I row2-row1	1.23874	0.379
Var 12h NI row2-row1	1.17864	1
Var 36h I row2-row1	0.84629	0.805
Var 36h NI row2-row1	0.99928	0.852
Var 60h I row2-row1	0.92051	0.832
Var 60h NI row2-row1	0.87632	0.516
Time course 0hI-0hNI	0.95826	0.699
Time course 12hI-12hNI	1.03804	0.756
Time course 36hI-36hNI	1.02261	0.799
Time course 60hI-60hNI	1.09794	0.16

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.59896	0.92

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06347	1
Manapal/WT (break)	0.87209	1
Manapal/WT (red)	0.82063	0.36