Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.6.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77511	0.062
27DAP/17DAP	0.71306	0.08
39DAP/27DAP	1.06945	0.84
41DAP/39DAP	1.0242	0.894
42DAP/41DAP	1.11731	0.926
43DAP/42DAP	1.00711	0.937
47DAP/43DAP	0.8024	0.402
52DAP/47DAP	0.87579	0.637
57DAP/52DAP	1.19136	0.886

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.64733	0.03
17DAP/reference	0.59254	0.007
27DAP/reference	0.89692	0.249
39DAP/reference	0.81097	0.024
41DAP/reference	0.73249	0.014
42DAP/reference	0.80425	0.007
43DAP/reference	0.85274	0.163
47DAP/reference	0.91019	0.191
52DAP/reference	1.04287	0.878
57DAP/reference	1.17102	0.114

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05888	0.841
27DAP/17DAP	0.83455	0.144
39DAP/27DAP	0.8772	0.243
41DAP/39DAP	1.05742	0.807
42DAP/41DAP	1.02972	0.984
43DAP/42DAP	0.89939	0.351
47DAP/43DAP	1.07467	0.641
52DAP/47DAP	0.98702	0.925
57DAP/52DAP	0.88095	0.441
57DAP/7DAP	0.88153	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94829	0.361
17DAP/reference	1.02344	1
27DAP/reference	0.94844	0.325
39DAP/reference	0.87154	0.109
41DAP/reference	0.85823	0.166
42DAP/reference	0.81874	0.042
43DAP/reference	0.76749	0.044
47DAP/reference	0.9207	0.222
52DAP/reference	0.9352	0.304
57DAP/reference	0.7197	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63826	0.005
17DAP/reference	0.57682	0.004
27DAP/reference	0.83639	0.041
39DAP/reference	0.83581	0.027
41DAP/reference	0.83207	0.049
42DAP/reference	1.01706	0.594
43DAP/reference	0.75048	0.042
47DAP/reference	0.82434	0.012
52DAP/reference	0.79479	0.031
57DAP/reference	0.62592	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76696	0.268
17DAP/reference	0.79961	0.095
27DAP/reference	0.89434	0.069
39DAP/reference	0.79124	0.025
41DAP/reference	0.83761	0.086
42DAP/reference	0.96112	0.552
43DAP/reference	0.79501	0.03
47DAP/reference	0.75669	0.019
52DAP/reference	2.12287	0.549
57DAP/reference	1.22169	0.196

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00729	1
26DAP/20DAP	1.32156	0.172
34DAP/26DAP	0.72629	0.24
51DAP/34DAP	0.78525	0.492
52DAP/51DAP	1.11253	0.722
53DAP/52DAP	1.15035	0.768
55DAP/53DAP	0.89926	0.675
57DAP/55DAP	1.12093	0.955
62DAP/57DAP	0.40897	0.007
68DAP/62DAP	1.59229	0.088
68DAP/14DAP	2.32936	0.161

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01842	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.29697	0.075
Mature Green Tomato/Ripe Tomato	68.1833	0.106
Immature Eggplant/Mature Eggplant	0.79518	0.366
Ripe Pepper/Ripe Tomato	2.07284
Mature Eggplant/Ripe Tomato	1.18648

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.80875
1-1-2/M82	0.92024	1
12-2/M82	1.179
12-4/M82	0.98247	1
1-3/M82	0.77079
2-1-1/M82	1.6133
2-1/M82	N/A	N/A
2-6/M82	0.99599	1
3-2/M82	1.13865
4-1-1/M82	0.7063
4-1/M82	1.09722
4-3-2/M82	0.97733	1
4-3/M82	1.14554	1
5-3/M82	1.01188	1
6-2/M82	0.95027	0.497
6-3/M82	N/A	N/A
7-1/M82	1.34695
7-2/M82	0.79418
9-3-2/M82	0.66192

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	0.79205
IL12-4/WTpooled	0.8084
IL1-4/WTpooled	0.9086	0.834
WT/WTpooled	1.07962	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	0.84736	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9751	1
DC3000/delta hrp 6h	1.04927	1
DC3000/delta hrp 12h	0.8902	1
DC3000/delta hrp 24h	0.97504	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97272	0.92
DC3000 delta B/DC3000 delta AB	0.88051	0.058

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07134	1
Exp 36h	0.87927	0.661
Exp 60h	0.96499	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00294	1
Var 0h	0.76947	1
Var 12h I row2-row1	0.87542	0.418
Var 12h NI row2-row1	1.01171	1
Var 36h I row2-row1	0.87538	1
Var 36h NI row2-row1	1.1926	0.276
Var 60h I row2-row1	1.01899	1
Var 60h NI row2-row1	1.11115	0.904
Time course 0hI-0hNI	1.04041	0.852
Time course 12hI-12hNI	1.04867	0.77
Time course 36hI-36hNI	0.95515	0.396
Time course 60hI-60hNI	0.39563	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)	0.86346	0.306
transgenic ySAMdc/azygous control (breaker)	0.813	0.49
transgenic ySAMdc/azygous control (red)	0.92457	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04393	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32958	0.14
Manapal/WT (break)	1.62379	0.14
Manapal/WT (red)	1.1573	0.413