Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93061	0.551
27DAP/17DAP	1.19672	0.825
39DAP/27DAP	1.08809	0.85
41DAP/39DAP	0.87847	0.52
42DAP/41DAP	1.06283	0.888
43DAP/42DAP	1.18169	0.601
47DAP/43DAP	1.34461	0.334
52DAP/47DAP	0.75705	0.325
57DAP/52DAP	1.20099	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19599	0.441
17DAP/reference	0.82399	0.02
27DAP/reference	1.0674	0.735
39DAP/reference	0.98485	0.779
41DAP/reference	1.06173	0.624
42DAP/reference	1.11438	0.144
43DAP/reference	1.03835	0.678
47DAP/reference	1.22476	0.006
52DAP/reference	1.23553	0.012
57DAP/reference	1.28799	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93292	0.415
27DAP/17DAP	0.99988
39DAP/27DAP	1.01898	0.742
41DAP/39DAP	0.90024	0.321
42DAP/41DAP	0.97001	0.746
43DAP/42DAP	1.00447	0.83
47DAP/43DAP	1.00339	0.963
52DAP/47DAP	0.99429	0.969
57DAP/52DAP	0.97742	0.651
57DAP/7DAP	0.94705	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16125	0.235
17DAP/reference	1.12602	0.896
27DAP/reference	0.76703	0.025
39DAP/reference	1.05191	0.909
41DAP/reference	0.71451	0.029
42DAP/reference	1.04099	0.751
43DAP/reference	0.94189	0.421
47DAP/reference	1.2849	0.079
52DAP/reference	0.96996	0.435
57DAP/reference	0.89852	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01413	0.926
17DAP/reference	1.20766	0.216
27DAP/reference	1.30048	0.082
39DAP/reference	1.16813	0.263
41DAP/reference	1.24337	0.018
42DAP/reference	1.20231	0.195
43DAP/reference	1.08149	0.624
47DAP/reference	1.07409	0.256
52DAP/reference	1.09938	0.145
57DAP/reference	1.28479	0.097

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91818	0.249
17DAP/reference	1.06811	0.977
27DAP/reference	0.88771	0.133
39DAP/reference	0.84954	0.111
41DAP/reference	0.89537	0.107
42DAP/reference	0.90429	0.361
43DAP/reference	1.08972	1
47DAP/reference	0.9148	0.296
52DAP/reference	1.77036	0.499
57DAP/reference	1.39023	0.057

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19075	0.966
26DAP/20DAP	1.03057	1
34DAP/26DAP	1.04829	1
51DAP/34DAP	0.94498	0.482
52DAP/51DAP	0.93593	0.151
53DAP/52DAP	0.9777	0.868
55DAP/53DAP	0.99038	0.876
57DAP/55DAP	1.02396	0.909
62DAP/57DAP	0.79772	0.466
68DAP/62DAP	1.29937	0.225
68DAP/14DAP	0.83597

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92319	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84166	0.304
Mature Green Tomato/Ripe Tomato	1.35029	0.399
Immature Eggplant/Mature Eggplant	0.87353	0.176
Ripe Pepper/Ripe Tomato	0.80956	1
Mature Eggplant/Ripe Tomato	1.24845	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.90293	1
12-2/M82	N/A	N/A
12-4/M82	1.1259	1
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	1.20759	0.508
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	1.12013	1

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	0.67876
IL12-4/WTpooled	0.39621
IL1-4/WTpooled	1.33603
WT/WTpooled	N/A	N/A

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	1.09463	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.77154	1
DC3000/delta hrp 6h	1.12122	1
DC3000/delta hrp 12h	0.94656	1
DC3000/delta hrp 24h	1.07595	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2009	0.043
DC3000 delta B/DC3000 delta AB	1.2116	0.193

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88378	1
Exp 36h	0.90019	0.366
Exp 60h	0.93778	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97727	1
Var 0h	0.71902	0.933
Var 12h I row2-row1	1.08615	0.242
Var 12h NI row2-row1	1.038	1
Var 36h I row2-row1	1.08487	0.908
Var 36h NI row2-row1	0.96046	0.743
Var 60h I row2-row1	1.00957	1
Var 60h NI row2-row1	1.07128	0.904
Time course 0hI-0hNI	1.04816	0.719
Time course 12hI-12hNI	0.8991	0.102
Time course 36hI-36hNI	0.86767	0.035
Time course 60hI-60hNI	1.22246	0.011

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)	1.05142	0.339
transgenic ySAMdc/azygous control (breaker)	1.38855	0.178
transgenic ySAMdc/azygous control (red)	1.13036	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10279	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8355	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96803	1
Manapal/WT (break)	1.20526	0.381
Manapal/WT (red)	1.04392	1