Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.2.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82392	0.324
27DAP/17DAP	1.00795	1
39DAP/27DAP	1.08954	0.949
41DAP/39DAP	0.99403	0.886
42DAP/41DAP	1.06612	0.978
43DAP/42DAP	1.12898	1
47DAP/43DAP	0.89253	0.628
52DAP/47DAP	0.86115	0.622
57DAP/52DAP	1.1224	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13003	0.126
17DAP/reference	1.00587	0.874
27DAP/reference	1.0174	0.794
39DAP/reference	0.98157	0.624
41DAP/reference	0.88324	0.154
42DAP/reference	0.9154	0.088
43DAP/reference	0.94474	0.36
47DAP/reference	0.99375	0.568
52DAP/reference	0.80764	0.125
57DAP/reference	0.87132	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75939	0.042
27DAP/17DAP	1.24455	0.133
39DAP/27DAP	0.86608	0.126
41DAP/39DAP	0.90825	0.617
42DAP/41DAP	1.03057	0.824
43DAP/42DAP	0.9627	0.482
47DAP/43DAP	0.98444	0.911
52DAP/47DAP	0.98196	0.913
57DAP/52DAP	0.93078	0.405
57DAP/7DAP	0.89481	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22199	0.124
17DAP/reference	1.86753	0.009
27DAP/reference	1.82619	0.01
39DAP/reference	1.54494	0.008
41DAP/reference	1.36256	0.019
42DAP/reference	1.3948	0.03
43DAP/reference	1.09485	0.386
47DAP/reference	1.08372	0.178
52DAP/reference	1.07328	0.526
57DAP/reference	1.12992	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05171	0.597
17DAP/reference	1.0366	0.789
27DAP/reference	1.02272	1
39DAP/reference	0.97809	0.442
41DAP/reference	1.05555	0.831
42DAP/reference	0.97612	0.433
43DAP/reference	0.98336	0.657
47DAP/reference	1.01225	0.816
52DAP/reference	0.75347	0.111
57DAP/reference	0.91666	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12317	0.251
17DAP/reference	1.24404	0.112
27DAP/reference	1.4043	0.023
39DAP/reference	1.13044	0.045
41DAP/reference	1.11707	0.239
42DAP/reference	0.87713	0.22
43DAP/reference	0.98119	0.614
47DAP/reference	0.9317	0.409
52DAP/reference	0.96938	0.675
57DAP/reference	0.8779	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80649	1
26DAP/20DAP	1.07769	0.834
34DAP/26DAP	0.91887	0.619
51DAP/34DAP	0.65372	0.049
52DAP/51DAP	0.99806	1
53DAP/52DAP	1.07991	0.58
55DAP/53DAP	0.94033	0.577
57DAP/55DAP	1.08546	0.61
62DAP/57DAP	0.88291	0.466
68DAP/62DAP	0.95174	0.787
68DAP/14DAP	0.89069	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75663	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.05251	0.058
Mature Green Tomato/Ripe Tomato	1.82064	0.026
Immature Eggplant/Mature Eggplant	0.72181	0.077
Ripe Pepper/Ripe Tomato	1.44501	1
Mature Eggplant/Ripe Tomato	1.68206	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96415	0.883
1-1-2/M82	1.10061	1
12-2/M82	0.98588	1
12-4/M82	1.04486	1
1-3/M82	1.11912	1
2-1-1/M82	N/A	N/A
2-1/M82	0.71094	0.322
2-6/M82	1.00635	1
3-2/M82	1.01786
4-1-1/M82	1.13384	0.977
4-1/M82	0.78698	1
4-3-2/M82	1.26906	0.241
4-3/M82	1.15329	0.268
5-3/M82	1.07929	1
6-2/M82	1.11715	1
6-3/M82	1.08697	1
7-1/M82	1.09622	0.741
7-2/M82	0.90423	0.54
9-3-2/M82	1.04312	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.97953	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97316	1
IL12-4/WTpooled	0.97822	1
IL1-4/WTpooled	0.97105	1
WT/WTpooled	0.95775	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	0.94619	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09167	0.875
DC3000/delta hrp 6h	0.7997	0.95
DC3000/delta hrp 12h	0.91021	1
DC3000/delta hrp 24h	0.5218	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.42537	0.024
DC3000 delta B/DC3000 delta AB	0.50127	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91748	1
Exp 36h	0.83782	0.471
Exp 60h	0.60829	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98798	1
Var 0h	0.58593	0.782
Var 12h I row2-row1	0.86701	0.357
Var 12h NI row2-row1	0.99083	1
Var 36h I row2-row1	1.1921	0.368
Var 36h NI row2-row1	1.00198	1
Var 60h I row2-row1	0.98129	0.952
Var 60h NI row2-row1	1.01792	1
Time course 0hI-0hNI	0.96017	0.699
Time course 12hI-12hNI	0.96871	0.806
Time course 36hI-36hNI	0.96894	0.484
Time course 60hI-60hNI	0.37122	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)	0.86381	0.324
transgenic ySAMdc/azygous control (breaker)	1.21737	0.248
transgenic ySAMdc/azygous control (red)	1.11537	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03485	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.47685	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02616	1
Manapal/WT (break)	0.97454	1
Manapal/WT (red)	0.90416	0.199