Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87351	0.445
27DAP/17DAP	0.99311	0.958
39DAP/27DAP	0.65135	0.326
41DAP/39DAP	2.03758	0.222
42DAP/41DAP	1.10548	1
43DAP/42DAP	0.88315	0.801
47DAP/43DAP	0.85873	0.39
52DAP/47DAP	2.79179	0.147
57DAP/52DAP	0.66616	0.588

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98671	0.645
17DAP/reference	1.17343	0.064
27DAP/reference	1.04528	0.923
39DAP/reference	1.00623	0.92
41DAP/reference	1.18454	0.158
42DAP/reference	0.87566	0.025
43DAP/reference	0.99671	0.882
47DAP/reference	0.86213	0.032
52DAP/reference	0.8837	0.215
57DAP/reference	0.68893	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3046	0.749
27DAP/17DAP	0.76356	0.312
39DAP/27DAP	1.17313	0.236
41DAP/39DAP	1.01999	1
42DAP/41DAP	0.97977	0.85
43DAP/42DAP	1.3	0.25
47DAP/43DAP	0.99692	0.983
52DAP/47DAP	1.13165	0.776
57DAP/52DAP	1.20244	0.451
57DAP/7DAP	1.09218	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74626	0.048
17DAP/reference	0.8001	0.014
27DAP/reference	0.7728	0.01
39DAP/reference	0.8044	0.011
41DAP/reference	0.91069	0.122
42DAP/reference	0.82023	0.01
43DAP/reference	0.74561	0.011
47DAP/reference	0.82342	0.057
52DAP/reference	0.80748	0.012
57DAP/reference	0.75513	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8975	0.374
17DAP/reference	0.93431	0.26
27DAP/reference	0.98069	0.554
39DAP/reference	0.7858	0.019
41DAP/reference	0.85674	0.016
42DAP/reference	0.92197	0.261
43DAP/reference	0.8333	0.056
47DAP/reference	0.91825	0.075
52DAP/reference	0.9403	0.187
57DAP/reference	0.92613	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99438	0.699
17DAP/reference	0.92713	0.308
27DAP/reference	0.90127	0.113
39DAP/reference	0.83686	0.012
41DAP/reference	0.88802	0.07
42DAP/reference	0.72534	0.016
43DAP/reference	0.78116	0.034
47DAP/reference	0.98216	0.558
52DAP/reference	0.85202	0.22
57DAP/reference	0.74089	0.06

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04109	0.966
26DAP/20DAP	0.69363	0.512
34DAP/26DAP	3.41061	0.819
51DAP/34DAP	1.74774	0.1
52DAP/51DAP	0.77669	0.151
53DAP/52DAP	1.74616	0.274
55DAP/53DAP	1.12352	0.82
57DAP/55DAP	0.97018	0.765
62DAP/57DAP	0.86436	0.466
68DAP/62DAP	0.9259	0.747
68DAP/14DAP	1.07207	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.35174	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.18997	0.072
Mature Green Tomato/Ripe Tomato	0.91548	0.715
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	12.0315	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0515	1
1-1-2/M82	0.97329	1
12-2/M82	1.35042
12-4/M82	1.00365	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	1.1961	0.695
3-2/M82	1.11662
4-1-1/M82	1.22577
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.53985
5-3/M82	0.96355	1
6-2/M82	1.01258
6-3/M82	1.23148	1
7-1/M82	N/A	N/A
7-2/M82	1.07652
9-3-2/M82	0.44838

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16535	0.277
IL2-6/WTpooled	1.13354	0.531
IL7-5/WTpooled	1.01518	1
IL7-3/WTpooled	0.78449	0.294
IL12-4/WTpooled	1.1079	0.839
IL1-4/WTpooled	0.96646	0.834
WT/WTpooled	0.90724	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	1.65257	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00766	1
DC3000/delta hrp 6h	0.65647
DC3000/delta hrp 12h	1.06559	1
DC3000/delta hrp 24h	6.27145	0.018

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	1.18513	1
Exp 36h	1.03659	0.943
Exp 60h	0.93768	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.44677
Var 0h	0.99801	1
Var 12h I row2-row1	1.68252	0.58
Var 12h NI row2-row1	0.89841	0.713
Var 36h I row2-row1	0.92217	0.233
Var 36h NI row2-row1	1.26521	0.253
Var 60h I row2-row1	0.98012	0.952
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	1.16861	0.764
Time course 12hI-12hNI	1.50566	0.633
Time course 36hI-36hNI	1.70397	0.035
Time course 60hI-60hNI	2.48731	0.008

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)	0.94824	0.428
transgenic ySAMdc/azygous control (breaker)	0.89883	0.142
transgenic ySAMdc/azygous control (red)	0.95645	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04962	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06373	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75083	1
Manapal/WT (break)	0.92668	1
Manapal/WT (red)	0.97805	0.863