Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.19.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94638	0.671
27DAP/17DAP	1.17009	0.859
39DAP/27DAP	0.8362	0.564
41DAP/39DAP	1.54425	0.722
42DAP/41DAP	0.91507	1
43DAP/42DAP	1.30033	0.317
47DAP/43DAP	1.53653	0.463
52DAP/47DAP	1.3249	0.757
57DAP/52DAP	1.0124	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10854	0.735
17DAP/reference	0.83982	0.208
27DAP/reference	1.07078	0.52
39DAP/reference	1.17543	0.098
41DAP/reference	1.1915	0.034
42DAP/reference	1.08131	0.68
43DAP/reference	0.87311	0.093
47DAP/reference	1.09172	0.223
52DAP/reference	1.35414	0.092
57DAP/reference	1.25492	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72902	0.051
27DAP/17DAP	1.20957	0.429
39DAP/27DAP	0.80557	0.134
41DAP/39DAP	0.87586	0.256
42DAP/41DAP	0.96663	0.695
43DAP/42DAP	1.19937	0.25
47DAP/43DAP	0.84534	0.29
52DAP/47DAP	1.54987	0.101
57DAP/52DAP	2.16454	0.033
57DAP/7DAP	0.99921	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68036	0.058
17DAP/reference	0.78574	0.011
27DAP/reference	0.90142	0.088
39DAP/reference	0.59543	0.011
41DAP/reference	0.56855	0.012
42DAP/reference	1.09342	0.233
43DAP/reference	0.88243	0.064
47DAP/reference	0.845	0.128
52DAP/reference	0.72607	0.043
57DAP/reference	0.68473	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95305	0.655
17DAP/reference	0.76506	0.17
27DAP/reference	1.20752	0.217
39DAP/reference	1.20676	0.239
41DAP/reference	1.07607	1
42DAP/reference	1.23334	0.04
43DAP/reference	1.14043	0.681
47DAP/reference	1.23465	0.089
52DAP/reference	1.09644	0.596
57DAP/reference	1.11648	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76854	0.028
17DAP/reference	1.02142	0.855
27DAP/reference	1.00485	0.843
39DAP/reference	0.7965	0.054
41DAP/reference	1.16432	0.471
42DAP/reference	1.17406	0.327
43DAP/reference	0.90572	0.334
47DAP/reference	1.12914	0.704
52DAP/reference	0.80457	0.303
57DAP/reference	1.14479	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.34065	0.966
26DAP/20DAP	0.57281	0.244
34DAP/26DAP	1.17615	1
51DAP/34DAP	0.62497	0.059
52DAP/51DAP	1.79458	0.037
53DAP/52DAP	0.77349	0.112
55DAP/53DAP	1.42698	0.107
57DAP/55DAP	0.60441	0.019
62DAP/57DAP	0.89968	0.681
68DAP/62DAP	1.16847	0.863
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.41533	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.23644	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.95102
Mature Eggplant/Ripe Tomato	0.39704	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.22067	0.455
1-1-2/M82	1.29473
12-2/M82	N/A	N/A
12-4/M82	0.86478
1-3/M82	N/A	N/A
2-1-1/M82	0.91789	1
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.09079	0.967
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	1.12635
5-3/M82	N/A	N/A
6-2/M82	0.73724
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	1.12158	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02816	1
IL2-6/WTpooled	0.85305	0.473
IL7-5/WTpooled	1.00743	1
IL7-3/WTpooled	1.1667	0.362
IL12-4/WTpooled	1.04985	0.785
IL1-4/WTpooled	0.99844	1
WT/WTpooled	1.03294	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	0.79157	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01542	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.78032
DC3000/delta hrp 24h	0.99511	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60894	0.032
DC3000 delta B/DC3000 delta AB	0.67175	0.022

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	1.02771	1
Var 0h	0.43433	1
Var 12h I row2-row1	0.86845	0.514
Var 12h NI row2-row1	1.07266	1
Var 36h I row2-row1	1.01011	1
Var 36h NI row2-row1	1.11987	1
Var 60h I row2-row1	1.02176	1
Var 60h NI row2-row1	1.01606	1
Time course 0hI-0hNI	1.06006	0.662
Time course 12hI-12hNI	0.95791	0.734
Time course 36hI-36hNI	0.88348	0.023
Time course 60hI-60hNI	0.39172	0.005

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)	1.05209	1
transgenic ySAMdc/azygous control (red)	1.10207	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96972	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26282	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.72234	0.333
Manapal/WT (red)	1.19132	0.142