Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97965	0.728
27DAP/17DAP	1.53266	0.646
39DAP/27DAP	0.93987	0.652
41DAP/39DAP	1.45797	0.326
42DAP/41DAP	1.24916	0.825
43DAP/42DAP	1.34107	0.512
47DAP/43DAP	0.87121	0.58
52DAP/47DAP	1.19619	0.709
57DAP/52DAP	1.1478	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65516	0.024
17DAP/reference	0.79183	0.079
27DAP/reference	1.10923	0.88
39DAP/reference	0.87296	0.254
41DAP/reference	0.66876	0.008
42DAP/reference	1.17393	0.299
43DAP/reference	1.12998	0.787
47DAP/reference	1.09732	0.404
52DAP/reference	0.83399	0.267
57DAP/reference	0.8489

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82414	0.164
27DAP/17DAP	1.26809	0.14
39DAP/27DAP	2.57228	0.039
41DAP/39DAP	1.91109	0.008
42DAP/41DAP	0.82279	0.059
43DAP/42DAP	0.82913	0.058
47DAP/43DAP	1.08634	0.475
52DAP/47DAP	0.66374	0.085
57DAP/52DAP	0.68887	0.221
57DAP/7DAP	0.79671

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70061	0.058
17DAP/reference	0.95667	0.338
27DAP/reference	0.74245	0.013
39DAP/reference	0.76122	0.043
41DAP/reference	0.5778	0.012
42DAP/reference	0.67799	0.012
43DAP/reference	0.60763	0.01
47DAP/reference	1.02327	1
52DAP/reference	0.66503	0.019
57DAP/reference	0.69036	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63511	0.006
17DAP/reference	0.7527	0.01
27DAP/reference	0.86951	0.34
39DAP/reference	0.7913	0.11
41DAP/reference	0.80049	0.091
42DAP/reference	N/A	N/A
43DAP/reference	0.8261	0.212
47DAP/reference	N/A	N/A
52DAP/reference	0.69516	0.004
57DAP/reference	0.98193	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70055	0.046
17DAP/reference	0.91487	0.381
27DAP/reference	0.58336	0.025
39DAP/reference	0.84394	0.018
41DAP/reference	0.80662	0.096
42DAP/reference	0.94784	0.552
43DAP/reference	0.97248	0.614
47DAP/reference	0.96416	0.434
52DAP/reference	2.44537	0.03
57DAP/reference	1.13163	0.419

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94393	1
26DAP/20DAP	1.03018	1
34DAP/26DAP	1.66583	0.819
51DAP/34DAP	0.97224
52DAP/51DAP	1.09791	0.565
53DAP/52DAP	0.94826	0.803
55DAP/53DAP	1.25171	0.537
57DAP/55DAP	1.96321	0.682
62DAP/57DAP	1.20464	0.185
68DAP/62DAP	2.38504	0.018
68DAP/14DAP	2.88745	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	12.8263	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.258	0.072
Mature Green Tomato/Ripe Tomato	0.86777	0.317
Immature Eggplant/Mature Eggplant	0.59993
Ripe Pepper/Ripe Tomato	0.51203	0.224
Mature Eggplant/Ripe Tomato	0.12167	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.71763	0.526
1-1-2/M82	1.01578	1
12-2/M82	0.95147	0.955
12-4/M82	0.60863	0.358
1-3/M82	1.32137	1
2-1-1/M82	1.45225	0.422
2-1/M82	2.53673	0.312
2-6/M82	1.20268	0.452
3-2/M82	1.20105	0.84
4-1-1/M82	0.80711	1
4-1/M82	0.8754	1
4-3-2/M82	0.73805	0.698
4-3/M82	0.35037	0.466
5-3/M82	2.08886	0.455
6-2/M82	0.9167	1
6-3/M82	1.20847	1
7-1/M82	0.55267	0.443
7-2/M82	1.13059	1
9-3-2/M82	1.15906	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7784	0.243
IL2-6/WTpooled	1.0237	0.788
IL7-5/WTpooled	0.99684	1
IL7-3/WTpooled	0.61818	0.294
IL12-4/WTpooled	0.83984	0.71
IL1-4/WTpooled	0.86708	0.457
WT/WTpooled	0.94548	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	1.00853	0.921
DC3000/delta hrp 6h	1.02286	1
DC3000/delta hrp 12h	0.981	1
DC3000/delta hrp 24h	1.00018	1

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	1.5015	1
Exp 36h	1.51386	0.489
Exp 60h	1.66652	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98141	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12703	0.242
Var 12h NI row2-row1	1.3257	0.649
Var 36h I row2-row1	1.21627	0.908
Var 36h NI row2-row1	0.80708	1
Var 60h I row2-row1	0.75458	0.374
Var 60h NI row2-row1	0.91338	0.866
Time course 0hI-0hNI	1.06747	0.63
Time course 12hI-12hNI	1.14998	0.445
Time course 36hI-36hNI	3.9556	0.004
Time course 60hI-60hNI	22.6697	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)	0.96402	0.722
transgenic ySAMdc/azygous control (breaker)	1.62769	0.248
transgenic ySAMdc/azygous control (red)	1.75781	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.47718	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64331	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16465	0.307
Manapal/WT (break)	1.44972	1
Manapal/WT (red)	0.83224	0.274