Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15275	0.575
27DAP/17DAP	0.82117	0.649
39DAP/27DAP	0.88451	0.549
41DAP/39DAP	0.66073
42DAP/41DAP	0.92805	1
43DAP/42DAP	1.1726	0.956
47DAP/43DAP	0.86854	0.562
52DAP/47DAP	0.77031	0.486
57DAP/52DAP	1.14539	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14468	0.334
17DAP/reference	0.83094	0.069
27DAP/reference	1.05961	0.509
39DAP/reference	1.00242	1
41DAP/reference	1.07373	1
42DAP/reference	0.76675	0.002
43DAP/reference	0.75667	0.02
47DAP/reference	0.76981	0.006
52DAP/reference	1.10749	0.991
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.50765	0.039
27DAP/17DAP	0.75723	0.227
39DAP/27DAP	1.26421	0.46
41DAP/39DAP	1.06309	0.861
42DAP/41DAP	1.05026	0.85
43DAP/42DAP	0.67314	0.03
47DAP/43DAP	1.08133	0.681
52DAP/47DAP	1.2146	0.645
57DAP/52DAP	1.15651	0.389
57DAP/7DAP	0.62771	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.80311	0.038
17DAP/reference	2.52122	0.007
27DAP/reference	1.86794	0.007
39DAP/reference	2.47973	0.006
41DAP/reference	2.57069	0.01
42DAP/reference	2.87435	0.006
43DAP/reference	4.10351	0.006
47DAP/reference	2.49985	0.136
52DAP/reference	2.98478	0.007
57DAP/reference	2.50493	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82574	0.041
17DAP/reference	0.74082	0.009
27DAP/reference	0.97446	0.576
39DAP/reference	0.85174	0.11
41DAP/reference	0.82251	0.066
42DAP/reference	0.87791	0.135
43DAP/reference	0.80464	0.147
47DAP/reference	0.8899	0.141
52DAP/reference	0.74818	0.004
57DAP/reference	0.82166	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66291	0.103
17DAP/reference	1.33649	0.538
27DAP/reference	2.5898	0.025
39DAP/reference	2.49075	0.019
41DAP/reference	1.92867	0.021
42DAP/reference	2.18418	0.022
43DAP/reference	2.03755	0.027
47DAP/reference	0.89961	0.215
52DAP/reference	2.31049	0.128
57DAP/reference	1.75319	0.209

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32526	0.966
26DAP/20DAP	1.94956	0.14
34DAP/26DAP	0.79919	0.404
51DAP/34DAP	1.16669	0.692
52DAP/51DAP	1.05381	0.579
53DAP/52DAP	0.89923	0.621
55DAP/53DAP	0.79972	0.35
57DAP/55DAP	1.04601	0.94
62DAP/57DAP	0.99781	1
68DAP/62DAP	1.68621	0.036
68DAP/14DAP	1.47396	0.071

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.25606	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.20369	0.089
Mature Green Tomato/Ripe Tomato	1.78896	0.017
Immature Eggplant/Mature Eggplant	1.29375	0.052
Ripe Pepper/Ripe Tomato	1.8494	0.258
Mature Eggplant/Ripe Tomato	3.47421	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.58738
1-1-2/M82	1.15664	1
12-2/M82	N/A	N/A
12-4/M82	1.01543	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	0.61759
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	0.77947
4-3-2/M82	N/A	N/A
4-3/M82	1.07423	1
5-3/M82	1.05987	1
6-2/M82	N/A	N/A
6-3/M82	0.89178
7-1/M82	1.01187	1
7-2/M82	1.01082	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79364	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.02042	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.05259	0.426
WT/WTpooled	N/A	N/A

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	0.9873	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03406	0.692
DC3000/delta hrp 6h	1.10907	1
DC3000/delta hrp 12h	0.60616	1
DC3000/delta hrp 24h	1.00862	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86196	0.183
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	0.9516	1
Exp 36h	0.88829	0.699
Exp 60h	0.83027	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0414	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.85581	0.31
Var 12h NI row2-row1	1.00432	1
Var 36h I row2-row1	0.98608	1
Var 36h NI row2-row1	1.43275	1
Var 60h I row2-row1	0.53161	0.292
Var 60h NI row2-row1	1.20149	0.904
Time course 0hI-0hNI	0.90156	0.37
Time course 12hI-12hNI	0.93773	0.661
Time course 36hI-36hNI	0.72213	0.023
Time course 60hI-60hNI	0.3558	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)	1.12155	0.347
transgenic ySAMdc/azygous control (breaker)	1.12428	1
transgenic ySAMdc/azygous control (red)	0.91284	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04099	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26087	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07375	0.088
Manapal/WT (break)	0.97851	1
Manapal/WT (red)	1.03956	1