Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.20.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92482	0.578
27DAP/17DAP	1.21699	0.833
39DAP/27DAP	0.66938	0.425
41DAP/39DAP	1.43577	0.326
42DAP/41DAP	1.08093	1
43DAP/42DAP	1.03702	0.937
47DAP/43DAP	1.09717	0.746
52DAP/47DAP	0.8744	0.637
57DAP/52DAP	0.94545	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03332	1
17DAP/reference	1.16879	0.018
27DAP/reference	0.99654	0.847
39DAP/reference	1.02401	0.359
41DAP/reference	1.11251	0.393
42DAP/reference	1.01324	1
43DAP/reference	1.05075	0.445
47DAP/reference	0.93416	0.161
52DAP/reference	0.92864	0.25
57DAP/reference	0.84793	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98311	0.782
27DAP/17DAP	0.94906	0.614
39DAP/27DAP	0.9993	1
41DAP/39DAP	1.44206	0.053
42DAP/41DAP	0.95925	0.662
43DAP/42DAP	0.91849	0.143
47DAP/43DAP	1.04931	0.822
52DAP/47DAP	1.0527	0.844
57DAP/52DAP	1.00537	0.838
57DAP/7DAP	1.2139	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.76515	0.035
17DAP/reference	1.3903	0.016
27DAP/reference	1.34837	0.011
39DAP/reference	1.31596	0.006
41DAP/reference	1.28142	0.033
42DAP/reference	1.20516	0.059
43DAP/reference	1.05988	0.432
47DAP/reference	0.95465	0.504
52DAP/reference	1.37404	0.008
57DAP/reference	1.47698	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26572	0.265
17DAP/reference	1.11075	0.426
27DAP/reference	1.09567	0.888
39DAP/reference	1.02375	1
41DAP/reference	0.97586	0.441
42DAP/reference	0.85557	0.098
43DAP/reference	1.2319	0.288
47DAP/reference	0.85682	0.056
52DAP/reference	1.17557	0.168
57DAP/reference	1.36362	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73943	0.016
17DAP/reference	1.1816	0.384
27DAP/reference	1.33544	0.067
39DAP/reference	1.33216	0.022
41DAP/reference	1.13238	0.383
42DAP/reference	1.07407	0.635
43DAP/reference	1.03898	0.961
47DAP/reference	0.968	0.465
52DAP/reference	1.10531	0.705
57DAP/reference	0.71036	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03234	1
26DAP/20DAP	1.16001	0.524
34DAP/26DAP	1.1196	0.819
51DAP/34DAP	0.68045	0.078
52DAP/51DAP	1.02447	0.873
53DAP/52DAP	0.93355	0.703
55DAP/53DAP	0.84851	0.225
57DAP/55DAP	0.97131	0.831
62DAP/57DAP	0.90686	0.871
68DAP/62DAP	0.84087	0.7
68DAP/14DAP	0.67046	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.56649	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.98883	0.863
Mature Green Tomato/Ripe Tomato	1.07931	0.577
Immature Eggplant/Mature Eggplant	1.24905	0.3
Ripe Pepper/Ripe Tomato	1.35262	1
Mature Eggplant/Ripe Tomato	1.61902	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.6324
12-2/M82	N/A	N/A
12-4/M82	0.75925	0.358
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	0.90897
4-1-1/M82	N/A	N/A
4-1/M82	0.70917	0.737
4-3-2/M82	0.9715
4-3/M82	N/A	N/A
5-3/M82	1.31728
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.95232
7-2/M82	N/A	N/A
9-3-2/M82	0.91374

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05237
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	1.01105	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90805	1
DC3000/delta hrp 6h	2.65484	0.672
DC3000/delta hrp 12h	1.20699	1
DC3000/delta hrp 24h	0.99403	0.966

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94108
DC3000 delta B/DC3000 delta AB	1.16834	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.39144	1
Exp 36h	0.96638	0.943
Exp 60h	1.17819	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	1.25947	0.298
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.78519
Time course 0hI-0hNI	0.89502
Time course 12hI-12hNI	0.82389
Time course 36hI-36hNI	1.22165	0.031
Time course 60hI-60hNI	1.6197

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)	1.09607	0.36
transgenic ySAMdc/azygous control (breaker)	1.51681	0.248
transgenic ySAMdc/azygous control (red)	1.05616	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01603	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64372	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27146	0.096
Manapal/WT (break)	1.00007	1
Manapal/WT (red)	1.27351	0.126