Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.3.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18982	0.545
27DAP/17DAP	1.18054	0.881
39DAP/27DAP	1.32662	0.575
41DAP/39DAP	0.95454	0.811
42DAP/41DAP	1.21998	0.903
43DAP/42DAP	1.06201	1
47DAP/43DAP	1.22657	0.429
52DAP/47DAP	0.88489	0.666
57DAP/52DAP	1.23765	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91438	0.442
17DAP/reference	2.15702	0.166
27DAP/reference	4.52911	0.026
39DAP/reference	1.82275	0.076
41DAP/reference	1.27622	1
42DAP/reference	1.85249	1
43DAP/reference	N/A	N/A
47DAP/reference	0.98362	0.636
52DAP/reference	1.12971	0.272
57DAP/reference	1.32217

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05543	0.847
27DAP/17DAP	0.92284	0.684
39DAP/27DAP	1.12026	0.534
41DAP/39DAP	0.93424	0.839
42DAP/41DAP	1.08481	0.559
43DAP/42DAP	1.01196	1
47DAP/43DAP	0.95761	0.823
52DAP/47DAP	1.43447	0.194
57DAP/52DAP	1.40249	0.179
57DAP/7DAP	2.31276	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01169	0.682
17DAP/reference	0.94192	0.338
27DAP/reference	1.04911	1
39DAP/reference	0.90822	0.23
41DAP/reference	1.19949	0.416
42DAP/reference	1.14883	0.791
43DAP/reference	0.90916	0.279
47DAP/reference	1.96046	0.121
52DAP/reference	0.92858	0.332
57DAP/reference	1.31907	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13914	0.758
17DAP/reference	1.91889	0.025
27DAP/reference	1.25421	0.463
39DAP/reference	1.39679	0.247
41DAP/reference	1.31096	0.737
42DAP/reference	2.02086	0.007
43DAP/reference	1.17929	0.728
47DAP/reference	0.76736
52DAP/reference	1.40482	0.368
57DAP/reference	1.8463	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94254	0.607
17DAP/reference	1.10803	0.746
27DAP/reference	1.2101
39DAP/reference	0.90397	0.504
41DAP/reference	0.96051	0.754
42DAP/reference	1.04639	0.775
43DAP/reference	2.07981	0.074
47DAP/reference	1.55621
52DAP/reference	0.63854	0.05
57DAP/reference	1.54928	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95916	1
26DAP/20DAP	1.43666	0.974
34DAP/26DAP	1.67433	1
51DAP/34DAP	1.05109	0.978
52DAP/51DAP	2.45158	0.035
53DAP/52DAP	1.00589	1
55DAP/53DAP	1.45821	0.537
57DAP/55DAP	0.73409	0.194
62DAP/57DAP	1.3582	0.678
68DAP/62DAP	1.18907	0.936
68DAP/14DAP	0.40608	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.54117	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.82626	0.256
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	14.2661
Mature Eggplant/Ripe Tomato	27.6248

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.21192	0.877
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.23586	0.611
1-3/M82	0.75233
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.16498
3-2/M82	1.06624
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.93618
4-3/M82	N/A	N/A
5-3/M82	1.05012	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.87254
7-2/M82	1.16315	1
9-3-2/M82	1.07851	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08307
IL2-6/WTpooled	0.7649	0.473
IL7-5/WTpooled	1.28326	0.722
IL7-3/WTpooled	0.98791	1
IL12-4/WTpooled	1.28131	0.516
IL1-4/WTpooled	1.01488	1
WT/WTpooled	1.01258	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	1.42467	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91122	0.941
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09308	1
DC3000/delta hrp 24h	0.93111	0.618

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.69298	0.042
DC3000 delta B/DC3000 delta AB	1.29847	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.978	1
Exp 36h	N/A	N/A
Exp 60h	1.04922	1

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	N/A	N/A
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)	2.61411	0.305
transgenic ySAMdc/azygous control (breaker)	0.26344	0.15
transgenic ySAMdc/azygous control (red)	0.62162	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.36923	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08243	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.47958	1
Manapal/WT (red)	2.62603	0.413