Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.12.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92017	0.543
27DAP/17DAP	1.03653	1
39DAP/27DAP	1.29375	0.595
41DAP/39DAP	1.00075	0.988
42DAP/41DAP	0.95419	1
43DAP/42DAP	0.95147	0.887
47DAP/43DAP	0.94022	0.779
52DAP/47DAP	1.18554	0.61
57DAP/52DAP	0.96779	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22618	0.023
17DAP/reference	1.27152	0.027
27DAP/reference	1.19337	0.19
39DAP/reference	1.19122	0.075
41DAP/reference	1.42879	0.013
42DAP/reference	1.25713	0.003
43DAP/reference	1.43655	0.403
47DAP/reference	1.07732	0.154
52DAP/reference	1.25109	0.026
57DAP/reference	0.97602	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1896	0.782
27DAP/17DAP	1.09336	0.943
39DAP/27DAP	0.3745
41DAP/39DAP	1.16754
42DAP/41DAP	2.96241	0.002
43DAP/42DAP	0.94608	0.902
47DAP/43DAP	1.24923	0.956
52DAP/47DAP	1.03798
57DAP/52DAP	1.06484
57DAP/7DAP	1.46561	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9231	0.296
17DAP/reference	0.93808	0.018
27DAP/reference	0.86946	0.01
39DAP/reference	0.96169	0.056
41DAP/reference	0.96414	0.311
42DAP/reference	0.89682	0.01
43DAP/reference	0.88972	0.026
47DAP/reference	1.05777	0.804
52DAP/reference	0.85117	0.053
57DAP/reference	0.87195	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24743	0.139
17DAP/reference	1.44328	0.029
27DAP/reference	1.34655	0.017
39DAP/reference	1.30049	0.023
41DAP/reference	1.40296	0.011
42DAP/reference	1.11662	0.543
43DAP/reference	1.49447	0.063
47DAP/reference	1.30777	0.008
52DAP/reference	1.44507	0.006
57DAP/reference	1.99886	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99144	0.699
17DAP/reference	1.07638	0.462
27DAP/reference	0.91364	0.032
39DAP/reference	0.97586	0.544
41DAP/reference	0.93677	0.264
42DAP/reference	0.93738	0.287
43DAP/reference	0.88785	0.044
47DAP/reference	1.21625	0.03
52DAP/reference	0.90915	0.25
57DAP/reference	0.73723	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88952	0.733
26DAP/20DAP	0.64432
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.01977	0.924
52DAP/51DAP	1.00313	1
53DAP/52DAP	1.19124	1
55DAP/53DAP	0.57068	0.43
57DAP/55DAP	0.47073
62DAP/57DAP	1.5644	0.35
68DAP/62DAP	0.60636	0.062
68DAP/14DAP	0.85588	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.52471

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.94473	0.569
Immature Eggplant/Mature Eggplant	1.10523	0.334
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.77426	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93463	0.907
1-1-2/M82	0.97517	1
12-2/M82	1.0445	1
12-4/M82	1.05593	1
1-3/M82	0.82522	0.441
2-1-1/M82	1.07879	0.764
2-1/M82	1.18759	1
2-6/M82	1.1399	0.505
3-2/M82	0.80663	1
4-1-1/M82	0.91863	1
4-1/M82	0.96153	1
4-3-2/M82	0.88946	1
4-3/M82	0.83137	0.611
5-3/M82	1.04629	1
6-2/M82	1.01596	1
6-3/M82	0.9132	0.916
7-1/M82	1.17202	1
7-2/M82	1.07099	1
9-3-2/M82	0.78267	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90938	1
IL2-6/WTpooled	1.25122	0.584
IL7-5/WTpooled	1.78559	0.792
IL7-3/WTpooled	0.59784	0.298
IL12-4/WTpooled	0.93863	1
IL1-4/WTpooled	1.05918	1
WT/WTpooled	0.91785	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	1.01292	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.0529	1
DC3000/delta hrp 24h	1.09057	0.271

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	0.98765	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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	0.9355	1
Var 12h I row2-row1	N/A	N/A
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)	1.00552	1
transgenic ySAMdc/azygous control (breaker)	0.65509	0.131
transgenic ySAMdc/azygous control (red)	0.85538	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92852	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58714	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.69566	0.172
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A