Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11275	0.697
27DAP/17DAP	0.87553	0.674
39DAP/27DAP	0.86209	0.449
41DAP/39DAP	1.07169	0.85
42DAP/41DAP	0.92597	1
43DAP/42DAP	0.84599	0.698
47DAP/43DAP	1.27005	0.234
52DAP/47DAP	0.99997	0.95
57DAP/52DAP	1.20935	0.892

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90592	0.136
17DAP/reference	1.04647	0.476
27DAP/reference	1.02552	0.684
39DAP/reference	1.08693	0.098
41DAP/reference	1.0232	0.963
42DAP/reference	0.91938	0.05
43DAP/reference	0.96799	0.331
47DAP/reference	0.98686	0.503
52DAP/reference	1.1113	0.229
57DAP/reference	1.15696	0.063

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.5315	0.699
27DAP/17DAP	1.11021	0.771
39DAP/27DAP	1.19596	0.718
41DAP/39DAP	0.89322	0.729
42DAP/41DAP	1.00404	0.894
43DAP/42DAP	1.18411	0.134
47DAP/43DAP	0.96653	0.846
52DAP/47DAP	0.89917	0.655
57DAP/52DAP	1.03063	0.869
57DAP/7DAP	1.17002	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94268	0.203
17DAP/reference	1.00329	1
27DAP/reference	0.86776	0.033
39DAP/reference	0.95689	0.411
41DAP/reference	1.06686	0.491
42DAP/reference	1.00886	0.791
43DAP/reference	0.91851	0.151
47DAP/reference	0.867	0.101
52DAP/reference	0.89861	0.137
57DAP/reference	1.03397	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94269	0.457
17DAP/reference	0.78113	0.01
27DAP/reference	0.74818	0.021
39DAP/reference	0.81237	0.054
41DAP/reference	0.84814	0.078
42DAP/reference	0.81697	0.073
43DAP/reference	0.82469	0.051
47DAP/reference	0.96429	0.311
52DAP/reference	0.86323	0.031
57DAP/reference	0.70701	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00624	1
17DAP/reference	1.03504	0.977
27DAP/reference	0.97295	0.49
39DAP/reference	0.94402	0.199
41DAP/reference	0.92377	0.293
42DAP/reference	0.92331	0.361
43DAP/reference	0.81334	0.024
47DAP/reference	0.96032	0.357
52DAP/reference	0.86258	0.228
57DAP/reference	0.98014	0.543

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05385	0.966
26DAP/20DAP	0.75217	0.317
34DAP/26DAP	1.14523	0.819
51DAP/34DAP	0.91151	0.587
52DAP/51DAP	1.19803	0.404
53DAP/52DAP	0.91283	0.374
55DAP/53DAP	1.13015	0.46
57DAP/55DAP	1.0548	1
62DAP/57DAP	1.98605	0.767
68DAP/62DAP	1.07887	1
68DAP/14DAP	0.71085	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7597	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.38292	0.097
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.70951
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06699	1
1-1-2/M82	1.42159
12-2/M82	1.06046
12-4/M82	1.50684	0.611
1-3/M82	0.80994
2-1-1/M82	1.04511	0.366
2-1/M82	N/A	N/A
2-6/M82	1.03034
3-2/M82	0.95879
4-1-1/M82	1.02325
4-1/M82	1.18001
4-3-2/M82	1.08845
4-3/M82	1.03079	1
5-3/M82	0.96843	1
6-2/M82	0.72919
6-3/M82	1.0968	1
7-1/M82	0.98006
7-2/M82	0.89027	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09612
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.12221	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91507	0.734
DC3000/delta hrp 6h	0.71333	0.914
DC3000/delta hrp 12h	1.00012	1
DC3000/delta hrp 24h	1.08808	0.438

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	0.91125	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92611	1
Exp 36h	N/A	N/A
Exp 60h	0.86909	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98331	1
Var 0h	1.02653	0.98
Var 12h I row2-row1	1.1434	0.379
Var 12h NI row2-row1	0.91653	0.308
Var 36h I row2-row1	0.9444	1
Var 36h NI row2-row1	0.87827	0.706
Var 60h I row2-row1	0.8973	0.952
Var 60h NI row2-row1	0.94651	1
Time course 0hI-0hNI	0.87558	0.548
Time course 12hI-12hNI	1.05914	0.738
Time course 36hI-36hNI	0.92572	0.084
Time course 60hI-60hNI	0.94283	0.646

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)	1.09123	0.294
transgenic ySAMdc/azygous control (breaker)	1.17549	0.248
transgenic ySAMdc/azygous control (red)	1.00472	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99938	0.94

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99803	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97288	1
Manapal/WT (break)	0.73184	0.333
Manapal/WT (red)	0.91366	0.728