Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.3.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95068	0.722
27DAP/17DAP	1.29078	0.845
39DAP/27DAP	2.88455	0.277
41DAP/39DAP	1.16804	0.797
42DAP/41DAP	0.88757	1
43DAP/42DAP	1.17991	0.954
47DAP/43DAP	0.38578	0.048
52DAP/47DAP	1.30902	0.91
57DAP/52DAP	0.94951	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97435	0.513
17DAP/reference	0.9523	0.26
27DAP/reference	0.98473	0.683
39DAP/reference	0.86575	0.023
41DAP/reference	0.82062	0.031
42DAP/reference	0.94373	0.037
43DAP/reference	0.95275	0.394
47DAP/reference	0.87998	0.071
52DAP/reference	0.89733	0.067
57DAP/reference	0.94774	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68249	0.068
27DAP/17DAP	0.92774	0.684
39DAP/27DAP	0.54961
41DAP/39DAP	2.93
42DAP/41DAP	1.00522	0.835
43DAP/42DAP	5.33891
47DAP/43DAP	0.77038	0.439
52DAP/47DAP	0.63408
57DAP/52DAP	0.54656
57DAP/7DAP	0.52618

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17748	0.129
17DAP/reference	1.32876	0.035
27DAP/reference	N/A	N/A
39DAP/reference	1.51947	0.086
41DAP/reference	0.98993	0.619
42DAP/reference	1.24137	0.174
43DAP/reference	1.5418	0.017
47DAP/reference	1.21318	0.068
52DAP/reference	1.41154	0.139
57DAP/reference	1.67623	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88781	0.286
17DAP/reference	0.72394	0.006
27DAP/reference	0.80446	0.026
39DAP/reference	1.07447	0.912
41DAP/reference	0.95854	0.373
42DAP/reference	0.85759	0.081
43DAP/reference	0.81708	0.092
47DAP/reference	1.01771	1
52DAP/reference	0.86913	0.007
57DAP/reference	1.2313	0.345

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15027	0.518
17DAP/reference	0.90859	0.452
27DAP/reference	1.38044	0.149
39DAP/reference	1.18979	0.275
41DAP/reference	1.39364	0.222
42DAP/reference	1.16035	0.635
43DAP/reference	0.88459	0.305
47DAP/reference	0.86789	0.024
52DAP/reference	0.97529	0.69
57DAP/reference	0.98009	0.593

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05032	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.22372
51DAP/34DAP	1.61193	0.483
52DAP/51DAP	1.62132
53DAP/52DAP	0.75017	0.587
55DAP/53DAP	1.46295	0.976
57DAP/55DAP	0.80625	0.427
62DAP/57DAP	1.12469	0.569
68DAP/62DAP	1.43235	0.448
68DAP/14DAP	1.70943	0.03

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22947	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80261	0.274
Mature Green Tomato/Ripe Tomato	2.57772	0.095
Immature Eggplant/Mature Eggplant	1.15249	0.379
Ripe Pepper/Ripe Tomato	2.3775	0.251
Mature Eggplant/Ripe Tomato	1.38587	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.70273	0.613
1-1-2/M82	0.81399	1
12-2/M82	1.16329	1
12-4/M82	1.0748	1
1-3/M82	2.03957	0.248
2-1-1/M82	N/A	N/A
2-1/M82	2.39764	0.345
2-6/M82	1.1215	1
3-2/M82	2.31597	0.443
4-1-1/M82	1.65482	1
4-1/M82	N/A	N/A
4-3-2/M82	4.01633
4-3/M82	0.74384	0.72
5-3/M82	1.83757	0.427
6-2/M82	6.16495	0.253
6-3/M82	1.31139	1
7-1/M82	0.67029
7-2/M82	1.42444
9-3-2/M82	1.71212	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.62311
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.9938	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	1.13661	0.758
DC3000/delta hrp 6h	1.02629	1
DC3000/delta hrp 12h	1.03415	1
DC3000/delta hrp 24h	1.91557	0.031

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	1.08829	1
Exp 36h	1.13615	1
Exp 60h	1.73104	0.221

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)	0.36432	0.234
transgenic ySAMdc/azygous control (breaker)	0.71322	0.173
transgenic ySAMdc/azygous control (red)	1.13272	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02661	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.59307	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94349	1
Manapal/WT (break)	0.48959	1
Manapal/WT (red)	0.48241	0.315