Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.14.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02203	0.938
27DAP/17DAP	1.40443	0.749
39DAP/27DAP	1.32145	0.516
41DAP/39DAP	1.53831	0.603
42DAP/41DAP	1.37539	0.825
43DAP/42DAP	0.85826	0.699
47DAP/43DAP	0.87647	0.499
52DAP/47DAP	2.09986	0.281
57DAP/52DAP	0.78247	0.765

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92948	0.094
17DAP/reference	1.0128	0.717
27DAP/reference	1.0033	1
39DAP/reference	0.99212	0.874
41DAP/reference	1.0272	0.667
42DAP/reference	1.04362	0.449
43DAP/reference	1.09982	0.031
47DAP/reference	0.97483	0.418
52DAP/reference	0.88714	0.024
57DAP/reference	0.95036	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06718	0.749
27DAP/17DAP	1.00289	0.969
39DAP/27DAP	1.07426	0.779
41DAP/39DAP	1.07141	1
42DAP/41DAP	1.07154	1
43DAP/42DAP	1.14385	0.23
47DAP/43DAP	1.09024	0.744
52DAP/47DAP	0.96543	0.876
57DAP/52DAP	0.91021	0.531
57DAP/7DAP	1.51773	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74948	0.108
17DAP/reference	0.85437	0.028
27DAP/reference	0.90001	0.02
39DAP/reference	0.83202	0.011
41DAP/reference	0.84636	0.067
42DAP/reference	0.8024	0.01
43DAP/reference	0.86289	0.069
47DAP/reference	0.84767	0.383
52DAP/reference	0.86176	0.163
57DAP/reference	0.79708	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20865	0.226
17DAP/reference	1.18125	0.113
27DAP/reference	0.94387	0.34
39DAP/reference	0.84654	0.022
41DAP/reference	0.92908	0.284
42DAP/reference	0.95975	0.355
43DAP/reference	1.53568	0.033
47DAP/reference	1.07727	0.067
52DAP/reference	1.00014	0.761
57DAP/reference	1.27304	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88124	0.054
17DAP/reference	1.08197	0.289
27DAP/reference	0.92601	0.126
39DAP/reference	0.92601	0.147
41DAP/reference	0.98028	0.618
42DAP/reference	0.96315	0.552
43DAP/reference	0.96909	0.503
47DAP/reference	1.12609	0.115
52DAP/reference	1.02576	0.946
57DAP/reference	0.75561	0.036

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92437	1
26DAP/20DAP	0.67599	0.244
34DAP/26DAP	0.84971	0.712
51DAP/34DAP	0.8352	0.482
52DAP/51DAP	1.23142	0.295
53DAP/52DAP	0.97136	0.862
55DAP/53DAP	1.20139	0.244
57DAP/55DAP	0.90823	0.575
62DAP/57DAP	1.25938	0.005
68DAP/62DAP	1.03465	0.914
68DAP/14DAP	0.62685	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78251	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.13909	0.69
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	0.90888
12-2/M82	N/A	N/A
12-4/M82	0.65813
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	N/A	N/A
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	1.04549	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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0703	0.365
IL2-6/WTpooled	0.95015	1
IL7-5/WTpooled	1.06522	0.792
IL7-3/WTpooled	1.11332	0.362
IL12-4/WTpooled	0.9989	1
IL1-4/WTpooled	1.09816	1
WT/WTpooled	0.97217	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98081	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.95214	1
DC3000/delta hrp 24h	1.10184	0.633

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	1.01817	0.254
Exp 36h	0.80801	0.661
Exp 60h	0.93212	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99177	1
Var 0h	1.02031	1
Var 12h I row2-row1	0.9938	1
Var 12h NI row2-row1	0.92904	0.713
Var 36h I row2-row1	0.70648	0.805
Var 36h NI row2-row1	1.06524	1
Var 60h I row2-row1	1.80452	0.562
Var 60h NI row2-row1	1.03485	1
Time course 0hI-0hNI	0.94105	0.577
Time course 12hI-12hNI	0.95123	0.535
Time course 36hI-36hNI	0.90805	0.225
Time course 60hI-60hNI	0.88077	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)	1.30872	0.286
transgenic ySAMdc/azygous control (breaker)	1.45163	0.248
transgenic ySAMdc/azygous control (red)	0.95759	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9956	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19918	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.98939	0.087
Manapal/WT (break)	1.25684	1
Manapal/WT (red)	2.49507	0.15