Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.17.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15089	0.739
27DAP/17DAP	3.31488	0.034
39DAP/27DAP	1.94036	0.177
41DAP/39DAP	1.18775	0.53
42DAP/41DAP	1.15555	0.856
43DAP/42DAP	1.20722	0.933
47DAP/43DAP	0.66465	0.122
52DAP/47DAP	1.03532	0.957
57DAP/52DAP	0.96659	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16943	0.35
17DAP/reference	1.03941	0.696
27DAP/reference	1.03787	0.684
39DAP/reference	0.96722	0.651
41DAP/reference	0.9817	0.667
42DAP/reference	1.16624	0.241
43DAP/reference	0.95016	0.594
47DAP/reference	1.22147	0.004
52DAP/reference	1.59319	0.008
57DAP/reference	1.32356	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49466	0.536
27DAP/17DAP	1.20693	0.573
39DAP/27DAP	4.08938	0.031
41DAP/39DAP	0.37543	0.013
42DAP/41DAP	1.32321	0.009
43DAP/42DAP	1.79049	0.015
47DAP/43DAP	0.65282	0.01
52DAP/47DAP	1.29302	0.293
57DAP/52DAP	0.95468	0.668
57DAP/7DAP	1.46611	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79175	0.076
17DAP/reference	0.78059	0.044
27DAP/reference	0.72809	0.023
39DAP/reference	1.17377	0.166
41DAP/reference	0.7623	0.032
42DAP/reference	1.00631	0.713
43DAP/reference	1.12368	0.016
47DAP/reference	1.42255	0.161
52DAP/reference	0.97853	0.477
57DAP/reference	1.28924	0.035

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92681	0.532
17DAP/reference	1.13377	0.723
27DAP/reference	1.11175	0.648
39DAP/reference	1.17007	0.175
41DAP/reference	1.12309	0.536
42DAP/reference	1.16678	0.38
43DAP/reference	0.92871	0.414
47DAP/reference	0.92479	0.359
52DAP/reference	1.11614	0.938
57DAP/reference	0.96386	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86507	0.23
17DAP/reference	0.8795	0.308
27DAP/reference	0.75338	0.056
39DAP/reference	1.10791	0.318
41DAP/reference	1.0334	1
42DAP/reference	1.10281	0.529
43DAP/reference	1.18077	0.426
47DAP/reference	1.09639	0.877
52DAP/reference	0.90236	0.36
57DAP/reference	1.27176	0.192

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.6502	0.006
26DAP/20DAP	1.15723	0.604
34DAP/26DAP	2.09828	0.114
51DAP/34DAP	2.79673	0.032
52DAP/51DAP	0.75894	0.151
53DAP/52DAP	1.06506	0.91
55DAP/53DAP	0.53047	0.021
57DAP/55DAP	0.99454	0.93
62DAP/57DAP	0.79906	0.28
68DAP/62DAP	1.12578	0.885
68DAP/14DAP	0.99789	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94187	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.6437	0.048
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	3.11379
Mature Eggplant/Ripe Tomato	0.88399	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	2.13713	0.742
1-1-2/M82	0.99974	1
12-2/M82	0.73069
12-4/M82	0.99736	1
1-3/M82	2.21864	0.248
2-1-1/M82	1.30557	0.229
2-1/M82	1.78395	0.345
2-6/M82	1.05965	1
3-2/M82	N/A	N/A
4-1-1/M82	0.94153	1
4-1/M82	1.11843	1
4-3-2/M82	0.93149	1
4-3/M82	0.59976	0.611
5-3/M82	1.07055	1
6-2/M82	2.51007	0.253
6-3/M82	1.05953	1
7-1/M82	1.16701	0.87
7-2/M82	1.28317	0.385
9-3-2/M82	1.39953	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11272	0.365
IL2-6/WTpooled	1.28379	0.395
IL7-5/WTpooled	0.82125	0.483
IL7-3/WTpooled	0.75586	0.31
IL12-4/WTpooled	1.07111	1
IL1-4/WTpooled	1.07838	1
WT/WTpooled	0.96435	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	1.05639	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.27084	0.774
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.39485	1
DC3000/delta hrp 24h	1.05151	0.69

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	N/A	N/A
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	1.04546	1
Var 0h	0.87469	1
Var 12h I row2-row1	1.2094	0.736
Var 12h NI row2-row1	1.27982	1
Var 36h I row2-row1	0.94163
Var 36h NI row2-row1	1.00556	1
Var 60h I row2-row1	0.78109
Var 60h NI row2-row1	0.6484	1
Time course 0hI-0hNI	1.03072	0.213
Time course 12hI-12hNI	1.00845	1
Time course 36hI-36hNI	1.47364	0.316
Time course 60hI-60hNI	2.36615	0.115

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.28337	1
transgenic ySAMdc/azygous control (red)	0.79056	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.43389	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.34604	0.083
Manapal/WT (break)	0.98138	0.236
Manapal/WT (red)	1.42779	0.413