Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04032	0.893
27DAP/17DAP	0.97147	0.967
39DAP/27DAP	0.82839	0.458
41DAP/39DAP	1.54986	0.326
42DAP/41DAP	1.01124	1
43DAP/42DAP	0.91828	0.741
47DAP/43DAP	1.02575	0.95
52DAP/47DAP	1.43643	0.405
57DAP/52DAP	0.98388	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12965	0.23
17DAP/reference	0.97687	0.737
27DAP/reference	1.00417	1
39DAP/reference	1.04226	0.352
41DAP/reference	0.98219	0.667
42DAP/reference	0.95218	0.015
43DAP/reference	0.98155	0.691
47DAP/reference	0.91714	0.013
52DAP/reference	0.81852	0.013
57DAP/reference	0.8667	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04062	0.687
27DAP/17DAP	1.06901	0.712
39DAP/27DAP	1.02887	0.659
41DAP/39DAP	1.10741	0.674
42DAP/41DAP	1.00985	1
43DAP/42DAP	0.94702	0.399
47DAP/43DAP	0.99992	1
52DAP/47DAP	0.9829	0.917
57DAP/52DAP	1.04031	0.806
57DAP/7DAP	1.1669	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90898	0.168
17DAP/reference	0.93398	0.015
27DAP/reference	0.95217	0.062
39DAP/reference	0.9905	0.411
41DAP/reference	0.97906	0.394
42DAP/reference	0.9674	0.436
43DAP/reference	0.94292	0.051
47DAP/reference	0.91923	0.222
52DAP/reference	0.86403	0.038
57DAP/reference	0.90956	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05652	0.524
17DAP/reference	1.00123	0.873
27DAP/reference	0.93122	0.229
39DAP/reference	0.97829	0.469
41DAP/reference	0.89116	0.108
42DAP/reference	0.92711	0.169
43DAP/reference	0.9941	0.761
47DAP/reference	0.98594	0.527
52DAP/reference	1.0875	0.559
57DAP/reference	1.04317	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04571	1
17DAP/reference	1.0205	0.842
27DAP/reference	0.95749	0.119
39DAP/reference	0.97412	0.36
41DAP/reference	0.93339	0.025
42DAP/reference	0.94129	0.108
43DAP/reference	0.88634	0.116
47DAP/reference	0.97684	0.478
52DAP/reference	0.90079	0.25
57DAP/reference	0.7659	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95592	1
26DAP/20DAP	1.01795	1
34DAP/26DAP	1.05215	1
51DAP/34DAP	0.82818	0.18
52DAP/51DAP	0.95623	1
53DAP/52DAP	0.93236	0.677
55DAP/53DAP	1.00054	0.925
57DAP/55DAP	1.0663	0.906
62DAP/57DAP	1.12557	0.622
68DAP/62DAP	0.88608	0.406
68DAP/14DAP	0.93639	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91267	0.155

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.53258	0.058
Mature Green Tomato/Ripe Tomato	1.0278	0.835
Immature Eggplant/Mature Eggplant	0.72112	0.063
Ripe Pepper/Ripe Tomato	0.38235	1
Mature Eggplant/Ripe Tomato	1.05996	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03482	1
1-1-2/M82	0.94343	1
12-2/M82	1.08627	1
12-4/M82	1.06422	1
1-3/M82	0.82856	0.378
2-1-1/M82	4.38641	0.764
2-1/M82	1.16478	1
2-6/M82	1.112	0.594
3-2/M82	0.95579	0.414
4-1-1/M82	1.02055	1
4-1/M82	0.99946
4-3-2/M82	0.98047	1
4-3/M82	0.99474	1
5-3/M82	1.01843	1
6-2/M82	1.04853	1
6-3/M82	1.08282	1
7-1/M82	1.02365	1
7-2/M82	1.0513	1
9-3-2/M82	0.87883	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1438	0.427
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.88076	0.418
IL12-4/WTpooled	0.98629	1
IL1-4/WTpooled	1.06173
WT/WTpooled	1.01913	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	1.13916	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96569	1
DC3000/delta hrp 6h	1.13869
DC3000/delta hrp 12h	1.13049	1
DC3000/delta hrp 24h	1.02321	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00601	0.648
DC3000 delta B/DC3000 delta AB	1.11429	0.318

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01883	1
Exp 36h	0.90268	0.82
Exp 60h	0.90553	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0486	1
Var 0h	0.98565	1
Var 12h I row2-row1	1.12147	0.324
Var 12h NI row2-row1	0.94466	0.713
Var 36h I row2-row1	0.9389	0.805
Var 36h NI row2-row1	0.86065	0.584
Var 60h I row2-row1	1.78657	1
Var 60h NI row2-row1	1.1315	0.904
Time course 0hI-0hNI	1.1172	0.662
Time course 12hI-12hNI	1.06906	0.507
Time course 36hI-36hNI	1.11632	0.023
Time course 60hI-60hNI	1.32188	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)	0.93867	0.409
transgenic ySAMdc/azygous control (breaker)	0.86027	0.251
transgenic ySAMdc/azygous control (red)	0.99612	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02464	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05563	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75433	1
Manapal/WT (break)	0.86659	0.333
Manapal/WT (red)	1.04504	1