Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.20.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79166	0.278
27DAP/17DAP	1.59598	0.532
39DAP/27DAP	0.9301	0.652
41DAP/39DAP	1.11688	0.772
42DAP/41DAP	1.07626	1
43DAP/42DAP	1.21268	0.644
47DAP/43DAP	1.08825	0.756
52DAP/47DAP	1.01967	0.781
57DAP/52DAP	1.39199	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31547	0.303
17DAP/reference	1.49327	0.068
27DAP/reference	1.36983	0.487
39DAP/reference	N/A	N/A
41DAP/reference	1.53713	0.451
42DAP/reference	0.60961
43DAP/reference	1.39019	0.617
47DAP/reference	0.64073
52DAP/reference	N/A	N/A
57DAP/reference	1.0036	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90358	0.542
27DAP/17DAP	0.7096	0.097
39DAP/27DAP	1.23057
41DAP/39DAP	2.19169
42DAP/41DAP	1.09349	1
43DAP/42DAP	1.17189	0.83
47DAP/43DAP	0.3557
52DAP/47DAP	0.82692	0.778
57DAP/52DAP	1.40577	0.899
57DAP/7DAP	0.76276

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86495	0.146
17DAP/reference	0.89966	0.295
27DAP/reference	0.81566	0.013
39DAP/reference	0.66768	0.02
41DAP/reference	0.81902	0.146
42DAP/reference	0.84586	0.03
43DAP/reference	1.01099	0.608
47DAP/reference	0.81625	0.05
52DAP/reference	0.64326	0.015
57DAP/reference	0.94126	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95325	0.592
17DAP/reference	0.89191	0.26
27DAP/reference	0.66245	0.048
39DAP/reference	0.80812	0.079
41DAP/reference	0.70127	0.014
42DAP/reference	0.66064	0.212
43DAP/reference	0.95099	0.581
47DAP/reference	0.88332	0.27
52DAP/reference	1.18109	0.988
57DAP/reference	0.92211	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97885	0.607
17DAP/reference	0.8531	0.162
27DAP/reference	0.84034	0.078
39DAP/reference	0.82655	0.035
41DAP/reference	0.66114	0.058
42DAP/reference	0.73145	0.036
43DAP/reference	0.74867	0.064
47DAP/reference	0.95594	0.296
52DAP/reference	0.86046	0.342
57DAP/reference	0.78919	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02996	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.89032	0.898
51DAP/34DAP	0.63546	0.24
52DAP/51DAP	0.5235
53DAP/52DAP	1.02602	1
55DAP/53DAP	0.63205
57DAP/55DAP	1.38511	0.955
62DAP/57DAP	1.14398	0.8
68DAP/62DAP	1.32919	0.367
68DAP/14DAP	1.1259	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.89335

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.76524	0.417
Mature Green Tomato/Ripe Tomato	1.07855	0.948
Immature Eggplant/Mature Eggplant	2.17792	0.05
Ripe Pepper/Ripe Tomato	0.89776
Mature Eggplant/Ripe Tomato	2.56005	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.71686	1
12-2/M82	N/A	N/A
12-4/M82	0.8577	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.8275
2-1/M82	N/A	N/A
2-6/M82	1.17228
3-2/M82	0.76081	1
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	0.76022
5-3/M82	1.03927
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.91612
9-3-2/M82	0.55946

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03788	0.493
IL2-6/WTpooled	0.90233	1
IL7-5/WTpooled	0.90345	1
IL7-3/WTpooled	1.2172	0.362
IL12-4/WTpooled	1.09121	0.737
IL1-4/WTpooled	1.12	1
WT/WTpooled	0.98298	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	1.46299	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03927
DC3000/delta hrp 6h	0.83972	0.95
DC3000/delta hrp 12h	0.64548	1
DC3000/delta hrp 24h	0.99472	1

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	1.00957

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12326	1
Exp 36h	0.76333	0.449
Exp 60h	1.00792	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)	0.97659	0.567
transgenic ySAMdc/azygous control (breaker)	1.30514	0.248
transgenic ySAMdc/azygous control (red)	1.00958	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.48196	0.087
Manapal/WT (break)	0.93746	1
Manapal/WT (red)	1.04359	1