Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92191	0.578
27DAP/17DAP	1.00496	0.877
39DAP/27DAP	0.80286	0.447
41DAP/39DAP	0.85702	0.501
42DAP/41DAP	1.04268	1
43DAP/42DAP	0.97728	0.925
47DAP/43DAP	0.83526	0.492
52DAP/47DAP	0.98484	0.913
57DAP/52DAP	0.89922	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90757	0.2
17DAP/reference	1.08052	0.132
27DAP/reference	1.00872	1
39DAP/reference	0.95076	0.455
41DAP/reference	0.93054	0.542
42DAP/reference	0.89474	0.019
43DAP/reference	0.86339	0.058
47DAP/reference	0.94783	0.161
52DAP/reference	0.69174	0.042
57DAP/reference	0.87409	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0089	1
27DAP/17DAP	1.02019	0.957
39DAP/27DAP	1.00376	1
41DAP/39DAP	1.10567	0.69
42DAP/41DAP	1.04601	0.947
43DAP/42DAP	1.02548	1
47DAP/43DAP	1.0721	0.805
52DAP/47DAP	0.96492	0.814
57DAP/52DAP	0.97463	0.737
57DAP/7DAP	1.04955	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04086	0.747
17DAP/reference	0.98233	0.447
27DAP/reference	0.94098	0.283
39DAP/reference	1.09031	0.175
41DAP/reference	0.94652	0.394
42DAP/reference	0.92744	0.262
43DAP/reference	1.03558	0.974
47DAP/reference	0.90799	0.222
52DAP/reference	1.22484	0.171
57DAP/reference	1.32287	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83592	0.058
17DAP/reference	0.87356	0.019
27DAP/reference	0.8443	0.167
39DAP/reference	0.86202	0.093
41DAP/reference	0.89474	0.103
42DAP/reference	0.80029	0.032
43DAP/reference	0.97973	0.633
47DAP/reference	0.90245	0.097
52DAP/reference	0.9004	0.143
57DAP/reference	0.94275	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8921	0.183
17DAP/reference	0.97526	0.647
27DAP/reference	0.89823	0.133
39DAP/reference	0.89834	0.029
41DAP/reference	1.02393	0.826
42DAP/reference	1.03828	0.877
43DAP/reference	1.00205	0.712
47DAP/reference	0.93526	0.249
52DAP/reference	0.93081	0.455
57DAP/reference	0.7247	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97761	1
26DAP/20DAP	1.04481	1
34DAP/26DAP	1.05902	1
51DAP/34DAP	1.32506	0.171
52DAP/51DAP	0.9209	1
53DAP/52DAP	1.08681	0.845
55DAP/53DAP	1.08902	0.848
57DAP/55DAP	1.02834	0.96
62DAP/57DAP	1.27123	0.678
68DAP/62DAP	1.01993	0.885
68DAP/14DAP	0.92753	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66839	0.027

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.66123	0.188
Mature Green Tomato/Ripe Tomato	0.8445	0.287
Immature Eggplant/Mature Eggplant	1.01782	1
Ripe Pepper/Ripe Tomato	3.66028	0.258
Mature Eggplant/Ripe Tomato	1.32934	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03666	1
1-1-2/M82	0.99817	1
12-2/M82	0.84498	0.955
12-4/M82	0.97619
1-3/M82	0.74306
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.14186
3-2/M82	1.16466	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	0.81876	0.611
5-3/M82	0.95808	1
6-2/M82	1.24426
6-3/M82	1.01565	1
7-1/M82	1.04094
7-2/M82	0.81601	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00159	1
IL2-6/WTpooled	1.07481	0.531
IL7-5/WTpooled	0.89985	1
IL7-3/WTpooled	1.2037	0.362
IL12-4/WTpooled	1.17344	0.516
IL1-4/WTpooled	0.88441	0.699
WT/WTpooled	1.03143	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	1.08778	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.82086	1
DC3000/delta hrp 6h	0.6772	0.95
DC3000/delta hrp 12h	1.02906	1
DC3000/delta hrp 24h	1.0507	0.633

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	N/A	N/A
Exp 36h	0.94554	1
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	0.9977	1
Var 0h	0.51481	1
Var 12h I row2-row1	0.67923	1
Var 12h NI row2-row1	1.75085	1
Var 36h I row2-row1	0.919	0.805
Var 36h NI row2-row1	1.37304
Var 60h I row2-row1	0.97276	0.285
Var 60h NI row2-row1	0.69004	0.932
Time course 0hI-0hNI	0.96052	0.812
Time course 12hI-12hNI	1.04062	0.774
Time course 36hI-36hNI	1.08202	0.355
Time course 60hI-60hNI	1.18017	0.08

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)	0.99407	0.789
transgenic ySAMdc/azygous control (breaker)	0.9813	1
transgenic ySAMdc/azygous control (red)	0.99444	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00016	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28686	0.229

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)	N/A	N/A
Manapal/WT (red)	0.78398	0.181