Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.2.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11377	0.798
27DAP/17DAP	1.24367	0.742
39DAP/27DAP	1.11505	0.876
41DAP/39DAP	0.85752	0.457
42DAP/41DAP	1.27025	0.868
43DAP/42DAP	1.35005	0.724
47DAP/43DAP	1.38059	0.208
52DAP/47DAP	0.99546	0.933
57DAP/52DAP	1.03923	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8557	0.067
17DAP/reference	0.75082	0.016
27DAP/reference	1.10363	0.468
39DAP/reference	0.83737	0.027
41DAP/reference	0.72564	0.016
42DAP/reference	0.91986	0.037
43DAP/reference	1.01989	0.957
47DAP/reference	1.1703	0.002
52DAP/reference	1.30218	0.021
57DAP/reference	1.30268	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92595	0.716
27DAP/17DAP	0.85987	0.821
39DAP/27DAP	1.81156
41DAP/39DAP	1.01982	1
42DAP/41DAP	1.77271	0.795
43DAP/42DAP	4.18542
47DAP/43DAP	0.58398	0.637
52DAP/47DAP	1.69623	0.366
57DAP/52DAP	1.30653
57DAP/7DAP	1.22386	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.62995	0.055
17DAP/reference	1.10659	0.477
27DAP/reference	1.33322	0.16
39DAP/reference	1.51746	0.006
41DAP/reference	1.4843	0.015
42DAP/reference	1.30236	0.1
43DAP/reference	1.21031	0.05
47DAP/reference	1.44015	0.106
52DAP/reference	1.12116	0.197
57DAP/reference	1.42209	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90388	0.306
17DAP/reference	0.77103	0.023
27DAP/reference	0.85593	0.084
39DAP/reference	1.01798	1
41DAP/reference	0.93894	0.256
42DAP/reference	0.93553	0.261
43DAP/reference	0.77101	0.039
47DAP/reference	0.98916	0.59
52DAP/reference	0.94297	0.239
57DAP/reference	0.70822	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15351	0.28
17DAP/reference	0.90658	0.239
27DAP/reference	1.09424	0.062
39DAP/reference	1.02023	1
41DAP/reference	0.95555	0.459
42DAP/reference	1.22048	0.408
43DAP/reference	1.3227	0.019
47DAP/reference	1.14963	0.279
52DAP/reference	1.60179	0.048
57DAP/reference	1.38149	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13852	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.81623
51DAP/34DAP	0.30713
52DAP/51DAP	1.3244	0.733
53DAP/52DAP	0.85701	0.498
55DAP/53DAP	0.74837	0.404
57DAP/55DAP	0.99768	0.938
62DAP/57DAP	0.87518	0.681
68DAP/62DAP	1.66424	0.105
68DAP/14DAP	2.24016	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.44455

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5908	0.127
Mature Green Tomato/Ripe Tomato	0.60691
Immature Eggplant/Mature Eggplant	1.04475	0.485
Ripe Pepper/Ripe Tomato	1.14697	1
Mature Eggplant/Ripe Tomato	0.51594	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01893	1
1-1-2/M82	1.05694	1
12-2/M82	0.84939	0.862
12-4/M82	0.91394	0.619
1-3/M82	1.84925	0.479
2-1-1/M82	1.01079	1
2-1/M82	1.04334	1
2-6/M82	0.98978	1
3-2/M82	1.05421	0.84
4-1-1/M82	1.20885	1
4-1/M82	0.69804
4-3-2/M82	1.26509	0.241
4-3/M82	1.40328	1
5-3/M82	1.05973	1
6-2/M82	1.22129	1
6-3/M82	1.05737	1
7-1/M82	1.00365	1
7-2/M82	1.40292	0.291
9-3-2/M82	1.42981	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96946	1
IL2-6/WTpooled	0.94261	1
IL7-5/WTpooled	0.86904
IL7-3/WTpooled	0.96856	1
IL12-4/WTpooled	0.79965	0.484
IL1-4/WTpooled	0.93259	1
WT/WTpooled	0.98892	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94056	1
DC3000/delta hrp 6h	1.08702	0.95
DC3000/delta hrp 12h	1.11291	1
DC3000/delta hrp 24h	1.13184	0.535

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	1.25678	1
Exp 36h	0.86143	0.589
Exp 60h	1.10136	0.563

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	0.81134	0.202
Var 12h I row2-row1	0.85257
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	N/A	N/A
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)	0.91583	0.362
transgenic ySAMdc/azygous control (breaker)	0.93097	0.49
transgenic ySAMdc/azygous control (red)	1.05264	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9046	0.12

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.184	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94629	1
Manapal/WT (break)	0.93796	1
Manapal/WT (red)	1.00006	1