Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61778	0.089
27DAP/17DAP	0.76854	0.392
39DAP/27DAP	1.16658	0.84
41DAP/39DAP	0.54862	0.055
42DAP/41DAP	0.88695	1
43DAP/42DAP	1.03963	0.937
47DAP/43DAP	0.92106	0.705
52DAP/47DAP	0.90527	0.483
57DAP/52DAP	1.18225	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48465	0.024
17DAP/reference	0.91845	0.393
27DAP/reference	1.17384	0.115
39DAP/reference	0.70671	0.01
41DAP/reference	0.59268	0.008
42DAP/reference	0.94737	0.218
43DAP/reference	0.80594	0.017
47DAP/reference	0.93923	0.242
52DAP/reference	1.08433	1
57DAP/reference	1.46188	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.32297	0.038
27DAP/17DAP	2.02206	0.023
39DAP/27DAP	0.52412	0.029
41DAP/39DAP	0.40252	0.013
42DAP/41DAP	1.08212	1
43DAP/42DAP	1.07641	0.788
47DAP/43DAP	0.95297	0.857
52DAP/47DAP	1.21159	0.689
57DAP/52DAP	1.14563	0.479
57DAP/7DAP	0.15028	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.11606	0.025
17DAP/reference	1.30554	0.042
27DAP/reference	1.04086	0.246
39DAP/reference	1.05764	0.601
41DAP/reference	1.01371	0.848
42DAP/reference	1.13684	0.132
43DAP/reference	1.12867	0.074
47DAP/reference	0.93305	0.293
52DAP/reference	0.93574	0.15
57DAP/reference	0.80839	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28326	0.65
17DAP/reference	1.37165	0.161
27DAP/reference	1.13788	0.607
39DAP/reference	0.9262	0.339
41DAP/reference	1.13845	0.45
42DAP/reference	1.07808	0.863
43DAP/reference	0.66034	0.007
47DAP/reference	0.75466	0.014
52DAP/reference	0.91173	0.171
57DAP/reference	0.70239	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.04409	0.015
17DAP/reference	1.49261	0.194
27DAP/reference	1.56121	0.018
39DAP/reference	1.01363	1
41DAP/reference	1.09819	0.188
42DAP/reference	1.28445	0.189
43DAP/reference	1.2027	0.154
47DAP/reference	0.7898	0.054
52DAP/reference	0.84478	0.22
57DAP/reference	1.71911	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86226	0.708
26DAP/20DAP	1.85041	0.319
34DAP/26DAP	1.48324	0.092
51DAP/34DAP	0.74332	0.176
52DAP/51DAP	0.97242	1
53DAP/52DAP	0.51218	0.049
55DAP/53DAP	0.4605	0.034
57DAP/55DAP	0.66501	0.094
62DAP/57DAP	1.27281	0.515
68DAP/62DAP	2.12489	0.027
68DAP/14DAP	1.64588	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.14036	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.10992	0.058
Mature Green Tomato/Ripe Tomato	12.0249	0.028
Immature Eggplant/Mature Eggplant	0.402	0.064
Ripe Pepper/Ripe Tomato	31.6436	0.256
Mature Eggplant/Ripe Tomato	35.0047	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.97954	1
12-2/M82	N/A	N/A
12-4/M82	0.96344	1
1-3/M82	0.60155
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.18546	1
3-2/M82	0.58164
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.84239
4-3/M82	0.62027
5-3/M82	1.15449	1
6-2/M82	N/A	N/A
6-3/M82	0.81721
7-1/M82	0.87204
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.6615	0.243
IL2-6/WTpooled	0.9051	1
IL7-5/WTpooled	2.36137	0.792
IL7-3/WTpooled	1.13694	1
IL12-4/WTpooled	0.99808	1
IL1-4/WTpooled	1.01643	1
WT/WTpooled	0.98414	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	1.13962	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97414	1
DC3000/delta hrp 6h	1.25092	0.672
DC3000/delta hrp 12h	1.36058	1
DC3000/delta hrp 24h	0.71748	0.159

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61904
DC3000 delta B/DC3000 delta AB	0.57193	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1149	1
Exp 36h	0.79077	0.623
Exp 60h	0.86932	0.664

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	0.45094	1
Var 12h I row2-row1	0.93289	0.565
Var 12h NI row2-row1	1.02585	1
Var 36h I row2-row1	1.05033	1
Var 36h NI row2-row1	1.00685	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.08937	1
Time course 0hI-0hNI	1.05201	1
Time course 12hI-12hNI	0.96287	0.897
Time course 36hI-36hNI	0.73557	0.04
Time course 60hI-60hNI	0.18531	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)	0.66054	0.314
transgenic ySAMdc/azygous control (breaker)	1.265	1
transgenic ySAMdc/azygous control (red)	1.23865	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.60035	0.095

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	4.54311	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.15429	0.083
Manapal/WT (break)	3.19895	0.126
Manapal/WT (red)	2.15104	0.15