Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.5.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04587	0.838
27DAP/17DAP	0.77973	0.385
39DAP/27DAP	0.9026	0.608
41DAP/39DAP	1.16935	0.478
42DAP/41DAP	1.00011	1
43DAP/42DAP	1.05573	1
47DAP/43DAP	0.97965	0.89
52DAP/47DAP	0.96712	0.875
57DAP/52DAP	0.96387	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9689	0.412
17DAP/reference	1.01569	0.528
27DAP/reference	0.98635	0.694
39DAP/reference	1.03734	0.628
41DAP/reference	1.05706	0.338
42DAP/reference	0.97914	0.295
43DAP/reference	0.98843	0.785
47DAP/reference	0.98557	0.418
52DAP/reference	0.79818	0.091
57DAP/reference	0.91746	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09872	0.326
27DAP/17DAP	0.94806	0.748
39DAP/27DAP	0.61612	0.028
41DAP/39DAP	0.97303	0.959
42DAP/41DAP	0.96699	0.721
43DAP/42DAP	0.74909	0.023
47DAP/43DAP	0.75585	0.015
52DAP/47DAP	0.87474	0.426
57DAP/52DAP	0.62784	0.102
57DAP/7DAP	0.24428	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85309	0.157
17DAP/reference	0.95214	0.011
27DAP/reference	0.94266	0.051
39DAP/reference	0.96225	0.354
41DAP/reference	0.95201	0.02
42DAP/reference	0.91197	0.012
43DAP/reference	0.94769	0.159
47DAP/reference	0.84485	0.101
52DAP/reference	0.91525	0.012
57DAP/reference	0.8474	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0289	0.704
17DAP/reference	0.98923	0.673
27DAP/reference	0.91401	0.16
39DAP/reference	0.89138	0.132
41DAP/reference	0.95947	0.364
42DAP/reference	0.84303	0.046
43DAP/reference	0.91147	0.102
47DAP/reference	0.99737	0.73
52DAP/reference	0.99736	0.713
57DAP/reference	1.03729	0.374

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99007	0.489
17DAP/reference	0.95755	0.537
27DAP/reference	0.92386	0.133
39DAP/reference	0.96311	0.179
41DAP/reference	0.88512	0.185
42DAP/reference	0.76056	0.134
43DAP/reference	0.93289	0.237
47DAP/reference	0.92074	0.259
52DAP/reference	0.86321	0.15
57DAP/reference	0.65857	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98161	1
26DAP/20DAP	1.42604	0.109
34DAP/26DAP	0.73202	0.095
51DAP/34DAP	0.77738	0.167
52DAP/51DAP	0.79782	0.151
53DAP/52DAP	0.89363	0.498
55DAP/53DAP	0.63696	0.024
57DAP/55DAP	1.17442	0.178
62DAP/57DAP	1.05049	0.8
68DAP/62DAP	0.88882	0.429
68DAP/14DAP	0.99048	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90964	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.85447
Mature Green Tomato/Ripe Tomato	3.26004	0.015
Immature Eggplant/Mature Eggplant	0.93744
Ripe Pepper/Ripe Tomato	2.25438	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02399	1
1-1-2/M82	0.91491	1
12-2/M82	1.06614	1
12-4/M82	0.93353	1
1-3/M82	0.87464	0.378
2-1-1/M82	1.25341	0.689
2-1/M82	N/A	N/A
2-6/M82	0.98071	1
3-2/M82	0.96296	1
4-1-1/M82	0.98323	1
4-1/M82	1.02504	1
4-3-2/M82	0.71745	0.487
4-3/M82	1.0832	1
5-3/M82	0.99905	1
6-2/M82	0.87537	1
6-3/M82	0.9746	1
7-1/M82	1.06684	1
7-2/M82	1.03333	0.385
9-3-2/M82	0.79234	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.21259	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.13282	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.97747	0.562
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	1.14787	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00014	1
DC3000/delta hrp 6h	1.08598	1
DC3000/delta hrp 12h	1.08627	1
DC3000/delta hrp 24h	0.96342	0.725

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	0.50142	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85792	1
Exp 36h	0.5528	0.471
Exp 60h	0.4471	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02213	1
Var 0h	0.85721	1
Var 12h I row2-row1	0.81896	0.338
Var 12h NI row2-row1	0.91362	0.627
Var 36h I row2-row1	1.0231	1
Var 36h NI row2-row1	1.04785	1
Var 60h I row2-row1	1.37578	0.543
Var 60h NI row2-row1	1.01882	1
Time course 0hI-0hNI	1.04174	0.63
Time course 12hI-12hNI	1.04885	0.687
Time course 36hI-36hNI	0.99862	0.811
Time course 60hI-60hNI	0.14488	0.006

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)	0.91003	0.614
transgenic ySAMdc/azygous control (breaker)	2.81959	0.248
transgenic ySAMdc/azygous control (red)	1.46776	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97456	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.55098	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.81743	0.14
Manapal/WT (break)	1.24197	1
Manapal/WT (red)	0.94938	0.728