Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88239	0.445
27DAP/17DAP	0.90625	0.863
39DAP/27DAP	1.05451	0.985
41DAP/39DAP	0.83458	0.503
42DAP/41DAP	0.93734	1
43DAP/42DAP	1.18475	0.867
47DAP/43DAP	0.98776	0.754
52DAP/47DAP	1.08803	0.965
57DAP/52DAP	1.48825	0.76

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88213	0.128
17DAP/reference	0.67259	0.01
27DAP/reference	0.87063	0.129
39DAP/reference	0.7652	0.025
41DAP/reference	0.66323	0.009
42DAP/reference	0.78505	0.003
43DAP/reference	0.84936	0.015
47DAP/reference	0.94019	0.224
52DAP/reference	1.15591	0.217
57DAP/reference	1.24196	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98544	0.679
27DAP/17DAP	1.12947	0.969
39DAP/27DAP	0.85286	0.092
41DAP/39DAP	1.03782	1
42DAP/41DAP	1.4366	0.935
43DAP/42DAP	1.02779	0.83
47DAP/43DAP	1.03576	0.989
52DAP/47DAP	1.0022	0.959
57DAP/52DAP	0.72325	0.196
57DAP/7DAP	1.57415	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0226	1
17DAP/reference	1.12885	0.134
27DAP/reference	0.98787	0.571
39DAP/reference	1.1329	0.126
41DAP/reference	1.06292	0.864
42DAP/reference	0.80101	0.058
43DAP/reference	1.05841	0.483
47DAP/reference	0.95305	0.504
52DAP/reference	1.02777	0.732
57DAP/reference	1.00506	0.775

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91624	0.362
17DAP/reference	0.82142	0.062
27DAP/reference	0.91482	0.212
39DAP/reference	1.18209	0.543
41DAP/reference	1.00867	0.735
42DAP/reference	0.98144	0.392
43DAP/reference	0.80929	0.082
47DAP/reference	0.86556	0.042
52DAP/reference	1.03127	0.596
57DAP/reference	0.69643	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0089	0.75
17DAP/reference	0.87696	0.092
27DAP/reference	0.96609	0.302
39DAP/reference	0.92609	0.133
41DAP/reference	0.94409	0.459
42DAP/reference	0.97998	0.671
43DAP/reference	0.93767	0.449
47DAP/reference	0.92675	0.315
52DAP/reference	0.84986	0.296
57DAP/reference	1.17331	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.31912	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.98217	1
51DAP/34DAP	0.71317	0.152
52DAP/51DAP	1.19696	0.225
53DAP/52DAP	1.82932	0.343
55DAP/53DAP	0.80659	0.336
57DAP/55DAP	0.90414	0.67
62DAP/57DAP	0.79628	0.28
68DAP/62DAP	1.72841	0.037
68DAP/14DAP	1.89374	0.046

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72136	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	1.27755	0.277
IL2-6/WTpooled	0.58817	0.383
IL7-5/WTpooled	1.2749	0.75
IL7-3/WTpooled	2.76591	1
IL12-4/WTpooled	1.42948	0.553
IL1-4/WTpooled	1.27876	1
WT/WTpooled	0.94198	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	0.77599	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91267
DC3000/delta hrp 6h	1.3073	0.857
DC3000/delta hrp 12h	1.2	1
DC3000/delta hrp 24h	1.19759	0.467

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	N/A	N/A
Exp 36h	0.67801	0.749
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	1.04451	1
Var 0h	1.03913	1
Var 12h I row2-row1	0.82725	0.338
Var 12h NI row2-row1	1.12561	1
Var 36h I row2-row1	0.98651	1
Var 36h NI row2-row1	0.58548	0.743
Var 60h I row2-row1	0.90837	0.285
Var 60h NI row2-row1	0.83067	0.516
Time course 0hI-0hNI	0.923	0.867
Time course 12hI-12hNI	1.02387	0.876
Time course 36hI-36hNI	0.86812	0.074
Time course 60hI-60hNI	0.57586	0.006

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)	1.09119	0.748
transgenic ySAMdc/azygous control (breaker)	0.5822	0.142
transgenic ySAMdc/azygous control (red)	1.36296	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97945	0.16

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08153	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88723	1
Manapal/WT (break)	0.54242	0.333
Manapal/WT (red)	N/A	N/A