Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98741	0.788
27DAP/17DAP	1.07149	0.877
39DAP/27DAP	0.87808	0.414
41DAP/39DAP	1.34376	0.386
42DAP/41DAP	1.02921	0.999
43DAP/42DAP	1.42809	0.661
47DAP/43DAP	1.48139	0.343
52DAP/47DAP	1.52606	0.418
57DAP/52DAP	0.89007	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54442	0.033
17DAP/reference	1.04313	0.696
27DAP/reference	0.98328	0.694
39DAP/reference	0.96784	0.651
41DAP/reference	0.98068	0.667
42DAP/reference	1.0585	0.414
43DAP/reference	1.04027	0.928
47DAP/reference	0.87867	0.03
52DAP/reference	0.89575	0.111
57DAP/reference	0.90474	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74665	0.046
27DAP/17DAP	0.9919	0.969
39DAP/27DAP	0.90347	0.529
41DAP/39DAP	1.39567	0.612
42DAP/41DAP	0.90401	0.595
43DAP/42DAP	0.96696	0.831
47DAP/43DAP	1.49344	0.758
52DAP/47DAP	1.0137	0.975
57DAP/52DAP	0.74998	0.157
57DAP/7DAP	1.08876	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04663	0.555
17DAP/reference	1.1404	0.269
27DAP/reference	0.9336	0.231
39DAP/reference	1.05579	0.411
41DAP/reference	1.29292	0.024
42DAP/reference	1.33773	0.016
43DAP/reference	1.21328	0.087
47DAP/reference	0.9995	1
52DAP/reference	1.17986	0.139
57DAP/reference	1.3292	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16032	0.289
17DAP/reference	1.14745	0.197
27DAP/reference	0.98481	0.598
39DAP/reference	1.29564	0.324
41DAP/reference	1.11177	0.629
42DAP/reference	0.96294	0.482
43DAP/reference	1.05596	0.91
47DAP/reference	1.10856	0.116
52DAP/reference	1.16214	0.106
57DAP/reference	0.96838	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02342	1
17DAP/reference	0.96577	0.499
27DAP/reference	1.36924	0.04
39DAP/reference	1.18951	0.104
41DAP/reference	1.15952	0.411
42DAP/reference	0.86511	0.087
43DAP/reference	1.10982	0.524
47DAP/reference	0.9106	0.06
52DAP/reference	0.96692	0.611
57DAP/reference	0.88429	0.154

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.44408	0.678
26DAP/20DAP	0.53582	0.512
34DAP/26DAP	1.80904	0.819
51DAP/34DAP	0.78252	0.252
52DAP/51DAP	1.69909	0.056
53DAP/52DAP	0.89238	0.684
55DAP/53DAP	1.50892	0.348
57DAP/55DAP	1.08422	1
62DAP/57DAP	0.86513	0.466
68DAP/62DAP	1.23071	0.589
68DAP/14DAP	0.8691	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96878	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.12991	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.04553
Mature Eggplant/Ripe Tomato	0.17361	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04836
1-1-2/M82	0.88999
12-2/M82	N/A	N/A
12-4/M82	1.40045
1-3/M82	0.65555	0.441
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.88627	1
3-2/M82	0.93088
4-1-1/M82	0.65178
4-1/M82	1.8187
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.92889	0.642
6-2/M82	N/A	N/A
6-3/M82	1.13191	1
7-1/M82	N/A	N/A
7-2/M82	0.76067
9-3-2/M82	N/A	N/A

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	N/A	N/A
IL12-4/WTpooled	0.71292
IL1-4/WTpooled	0.97885
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	3.74558	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07942	0.921
DC3000/delta hrp 6h	8.5873	0.449
DC3000/delta hrp 12h	1.12558	1
DC3000/delta hrp 24h	1.11008	0.553

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	0.81077	1
Exp 36h	2.11731	0.693
Exp 60h	2.25954	0.227

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	0.98942	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	0.8014
Var 36h I row2-row1	1.11112	1
Var 36h NI row2-row1	0.95408
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.90639
Time course 0hI-0hNI	1.00399
Time course 12hI-12hNI	12.1982
Time course 36hI-36hNI	1.39627	0.218
Time course 60hI-60hNI	8.20747	0.069

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)	2.72532	0.272
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.37957	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98912	0.552

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.29333	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14906	0.307
Manapal/WT (break)	2.53283	0.381
Manapal/WT (red)	0.6976	0.181