Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.2.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15737	0.863
27DAP/17DAP	1.23367	0.747
39DAP/27DAP	1.32473	0.626
41DAP/39DAP	0.97452	0.781
42DAP/41DAP	1.95772	0.143
43DAP/42DAP	1.23303	0.569
47DAP/43DAP	1.30229	0.288
52DAP/47DAP	0.80961	0.517
57DAP/52DAP	1.04409	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86303	0.048
17DAP/reference	0.97666	0.63
27DAP/reference	0.94405	0.395
39DAP/reference	0.94207	0.306
41DAP/reference	0.93897	0.267
42DAP/reference	0.97571	0.359
43DAP/reference	0.9688	0.538
47DAP/reference	1.04895	0.329
52DAP/reference	1.18011	0.079
57DAP/reference	0.83697	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19993	0.205
27DAP/17DAP	0.90564	0.475
39DAP/27DAP	1.05407	0.698
41DAP/39DAP	1.09249	0.853
42DAP/41DAP	1.07523	0.81
43DAP/42DAP	1.31516	0.019
47DAP/43DAP	0.99003	0.971
52DAP/47DAP	1.14194	0.586
57DAP/52DAP	1.04754	0.877
57DAP/7DAP	1.25418	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84528	0.326
17DAP/reference	2.86063
27DAP/reference	0.87091	0.348
39DAP/reference	1.0124	0.745
41DAP/reference	0.82235	0.166
42DAP/reference	0.98575	0.531
43DAP/reference	1.05739	1
47DAP/reference	0.96378	0.671
52DAP/reference	0.96175	0.523
57DAP/reference	0.84879	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83528	0.145
17DAP/reference	0.78149	0.025
27DAP/reference	1.00492	1
39DAP/reference	0.92796	0.25
41DAP/reference	1.07138	1
42DAP/reference	0.85076	0.121
43DAP/reference	0.71918	0.011
47DAP/reference	0.8006	0.016
52DAP/reference	0.78996	0.22
57DAP/reference	0.91326	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92026	0.455
17DAP/reference	0.93218	0.519
27DAP/reference	1.01823
39DAP/reference	0.93678	0.591
41DAP/reference	1.09077	0.777
42DAP/reference	1.04345	0.907
43DAP/reference	0.81827	0.165
47DAP/reference	1.09617	0.372
52DAP/reference	1.45488	0.158
57DAP/reference	1.21816	0.055

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03423	0.966
26DAP/20DAP	0.81852	0.317
34DAP/26DAP	1.31435	1
51DAP/34DAP	1.25105	0.829
52DAP/51DAP	1.05735	0.925
53DAP/52DAP	0.93434	0.803
55DAP/53DAP	1.17765	0.185
57DAP/55DAP	0.89053	0.508
62DAP/57DAP	0.77721	0.016
68DAP/62DAP	1.10206	0.689
68DAP/14DAP	1.62916	0.063

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.51986	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.67442	0.089
Mature Green Tomato/Ripe Tomato	0.69418	0.03
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.11131	1
Mature Eggplant/Ripe Tomato	0.4573	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.3904	0.536
1-1-2/M82	0.86489
12-2/M82	0.92278	0.955
12-4/M82	0.71306	0.272
1-3/M82	1.33258	1
2-1-1/M82	0.74332	0.465
2-1/M82	N/A	N/A
2-6/M82	1.34871	0.329
3-2/M82	0.80144	0.752
4-1-1/M82	1.0324	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.34727	0.268
5-3/M82	0.94748	1
6-2/M82	1.18705	1
6-3/M82	1.13219	1
7-1/M82	1.03209	1
7-2/M82	1.06057	1
9-3-2/M82	1.24787

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79309	0.243
IL2-6/WTpooled	0.69911	0.358
IL7-5/WTpooled	0.66431	1
IL7-3/WTpooled	0.90133	0.418
IL12-4/WTpooled	0.94761	1
IL1-4/WTpooled	0.85918	0.699
WT/WTpooled	1.08837	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	0.75539	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98784	1
DC3000/delta hrp 6h	1.07782	1
DC3000/delta hrp 12h	1.01264	1
DC3000/delta hrp 24h	0.72906	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.44524	0.023
DC3000 delta B/DC3000 delta AB	0.67931	0.056

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.81697	1
Exp 36h	0.57507	0.406
Exp 60h	0.58538	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98732	1
Var 0h	1.40613	0.98
Var 12h I row2-row1	0.8157	0.418
Var 12h NI row2-row1	1.03565	1
Var 36h I row2-row1	0.91734	1
Var 36h NI row2-row1	1.32322	0.482
Var 60h I row2-row1	1.0966	1
Var 60h NI row2-row1	1.06265	1
Time course 0hI-0hNI	0.94747	0.659
Time course 12hI-12hNI	0.92576	0.285
Time course 36hI-36hNI	0.86378	0.068
Time course 60hI-60hNI	0.18649	0.005

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)	1.03559	0.408
transgenic ySAMdc/azygous control (breaker)	0.82652	0.173
transgenic ySAMdc/azygous control (red)	1.38998	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97777	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.42174	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.99712	0.09
Manapal/WT (break)	1.05432	1
Manapal/WT (red)	1.32983	0.133