Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1234	0.977
27DAP/17DAP	1.17046	0.89
39DAP/27DAP	0.71825	0.304
41DAP/39DAP	0.70473	0.184
42DAP/41DAP	1.01551	1
43DAP/42DAP	0.97814	0.925
47DAP/43DAP	0.85855	0.55
52DAP/47DAP	0.94933	0.75
57DAP/52DAP	1.42416	0.641

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96012	0.308
17DAP/reference	0.93273	0.194
27DAP/reference	0.9805	0.668
39DAP/reference	0.93056	0.17
41DAP/reference	0.84615	0.085
42DAP/reference	0.86706	0.003
43DAP/reference	0.99507	0.861
47DAP/reference	0.90625	0.021
52DAP/reference	0.98571	0.564
57DAP/reference	1.04642	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19024	0.192
27DAP/17DAP	0.90401	0.748
39DAP/27DAP	0.9985	1
41DAP/39DAP	0.92525	0.793
42DAP/41DAP	0.96603	0.721
43DAP/42DAP	1.08647	0.23
47DAP/43DAP	1.00649	1
52DAP/47DAP	1.09805	0.669
57DAP/52DAP	1.22683	0.177
57DAP/7DAP	0.9718	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00168	0.758
17DAP/reference	1.06937	0.361
27DAP/reference	0.94077	0.283
39DAP/reference	0.96319	0.411
41DAP/reference	0.97919	0.469
42DAP/reference	1.04674	0.889
43DAP/reference	0.91435	0.292
47DAP/reference	0.88498	0.222
52DAP/reference	0.69554	0.021
57DAP/reference	0.84498	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91457	0.231
17DAP/reference	0.88264	0.059
27DAP/reference	0.87159	0.033
39DAP/reference	0.93561	0.202
41DAP/reference	0.93187	0.183
42DAP/reference	0.86701	0.025
43DAP/reference	0.80317	0.058
47DAP/reference	0.82402	0.011
52DAP/reference	0.87845	0.009
57DAP/reference	0.80638	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21124	0.103
17DAP/reference	1.13835	0.612
27DAP/reference	1.10615	0.531
39DAP/reference	0.97006	0.504
41DAP/reference	0.93492	0.264
42DAP/reference	0.93691	0.361
43DAP/reference	0.92285	0.256
47DAP/reference	0.94106	0.231
52DAP/reference	0.99991	0.781
57DAP/reference	1.08729	0.291

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15481	0.966
26DAP/20DAP	0.83757	0.512
34DAP/26DAP	0.95788	0.917
51DAP/34DAP	1.06328	0.775
52DAP/51DAP	1.01478	1
53DAP/52DAP	0.95387	0.797
55DAP/53DAP	1.17744	0.46
57DAP/55DAP	0.79314	0.09
62DAP/57DAP	1.15175	0.445
68DAP/62DAP	1.2486	0.31
68DAP/14DAP	1.20185	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9037	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.28626	0.075
Mature Green Tomato/Ripe Tomato	1.62898	0.015
Immature Eggplant/Mature Eggplant	0.97514	0.808
Ripe Pepper/Ripe Tomato	1.58638	1
Mature Eggplant/Ripe Tomato	1.57208	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12623
1-1-2/M82	0.84051
12-2/M82	N/A	N/A
12-4/M82	0.84011	0.358
1-3/M82	0.8498
2-1-1/M82	N/A	N/A
2-1/M82	0.82299
2-6/M82	0.81899
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	1.00971	1
6-2/M82	1.15748
6-3/M82	N/A	N/A
7-1/M82	1.26549
7-2/M82	1.25397
9-3-2/M82	1.26162

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84694
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.57284
IL1-4/WTpooled	N/A	N/A
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	0.93566	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85803	1
DC3000/delta hrp 6h	1.00435	0.95
DC3000/delta hrp 12h	0.91398	1
DC3000/delta hrp 24h	0.83161	0.065

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.6499	0.027
DC3000 delta B/DC3000 delta AB	0.77352	0.347

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0363	1
Exp 36h	0.71544	0.41
Exp 60h	0.73778	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98273	1
Var 0h	1.02631	0.98
Var 12h I row2-row1	0.90052	0.363
Var 12h NI row2-row1	0.93161	0.713
Var 36h I row2-row1	0.8977	1
Var 36h NI row2-row1	1.49553	0.482
Var 60h I row2-row1	0.83802	0.285
Var 60h NI row2-row1	1.09724	0.904
Time course 0hI-0hNI	1.00812	1
Time course 12hI-12hNI	1.00034	1
Time course 36hI-36hNI	0.82761	0.062
Time course 60hI-60hNI	0.35479	0.005

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)	1.10795	0.238
transgenic ySAMdc/azygous control (breaker)	1.27154	0.178
transgenic ySAMdc/azygous control (red)	1.03468	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01338	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.72325	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.20919	0.09
Manapal/WT (break)	1.04223	1
Manapal/WT (red)	1.9616	0.126