Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.4.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84711	0.389
27DAP/17DAP	1.15792	0.854
39DAP/27DAP	1.41565	0.603
41DAP/39DAP	0.67767	0.087
42DAP/41DAP	0.7119	0.774
43DAP/42DAP	0.91699	0.863
47DAP/43DAP	1.42628	0.733
52DAP/47DAP	1.13753	0.98
57DAP/52DAP	0.90936	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91311	0.231
17DAP/reference	1.01088	0.787
27DAP/reference	1.15646	0.156
39DAP/reference	0.91583	0.306
41DAP/reference	0.86116	0.542
42DAP/reference	0.9747	0.25
43DAP/reference	0.61667	0.346
47DAP/reference	0.98497	0.224
52DAP/reference	0.94748	0.427
57DAP/reference	6.52224

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92615	0.336
27DAP/17DAP	0.98355	0.887
39DAP/27DAP	1.09389	0.496
41DAP/39DAP	1.2316	0.663
42DAP/41DAP	0.87515	0.184
43DAP/42DAP	1.08941	0.134
47DAP/43DAP	1.07258	0.822
52DAP/47DAP	1.00243	0.97
57DAP/52DAP	0.85105	0.135
57DAP/7DAP	1.15724	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77485	0.108
17DAP/reference	0.83185	0.019
27DAP/reference	0.88908	0.033
39DAP/reference	0.77882	0.013
41DAP/reference	0.77587	0.035
42DAP/reference	0.83813	0.013
43DAP/reference	0.77944	0.025
47DAP/reference	0.93958	0.504
52DAP/reference	0.80781	0.049
57DAP/reference	0.82066	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98	0.786
17DAP/reference	0.8308	0.23
27DAP/reference	0.98787	0.619
39DAP/reference	0.92303	0.227
41DAP/reference	1.12096	0.562
42DAP/reference	0.97824	0.433
43DAP/reference	1.10999	0.751
47DAP/reference	1.00771	0.833
52DAP/reference	1.05352	0.498
57DAP/reference	0.98736	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9864	0.607
17DAP/reference	0.89421	0.305
27DAP/reference	0.72723	0.031
39DAP/reference	0.83229	0.023
41DAP/reference	0.87693	0.119
42DAP/reference	1.07883	0.6
43DAP/reference	0.86146	0.066
47DAP/reference	1.01151	0.754
52DAP/reference	1.08101	0.705
57DAP/reference	1.03529	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02291	1
26DAP/20DAP	0.78219	0.228
34DAP/26DAP	1.055	1
51DAP/34DAP	1.05245	0.73
52DAP/51DAP	0.86223	0.151
53DAP/52DAP	1.26094	0.121
55DAP/53DAP	1.02645	1
57DAP/55DAP	1.29613	0.805
62DAP/57DAP	0.42586
68DAP/62DAP	1.55761	0.265
68DAP/14DAP	0.97078	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88983	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.37879
Mature Green Tomato/Ripe Tomato	3.43442	0.015
Immature Eggplant/Mature Eggplant	2.12732	0.054
Ripe Pepper/Ripe Tomato	0.68559
Mature Eggplant/Ripe Tomato	1.84413	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01436	1
IL2-6/WTpooled	2.46912	0.788
IL7-5/WTpooled	0.80445	0.559
IL7-3/WTpooled	1.07416	1
IL12-4/WTpooled	0.97724	1
IL1-4/WTpooled	0.97745	1
WT/WTpooled	0.77402	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	1.28374	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97661	1
DC3000/delta hrp 6h	0.83068	0.95
DC3000/delta hrp 12h	0.98007	1
DC3000/delta hrp 24h	0.84402	0.292

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25461	0.27
DC3000 delta B/DC3000 delta AB	1.20166	0.24

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22659	1
Exp 36h	1.34115	0.693
Exp 60h	1.31485	0.399

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	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	0.59096
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.07567	0.455
transgenic ySAMdc/azygous control (breaker)	0.99033	1
transgenic ySAMdc/azygous control (red)	0.97049	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10334	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8543	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79031	1
Manapal/WT (break)	0.91812	1
Manapal/WT (red)	2.12464	0.222