Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.1.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81135	0.272
27DAP/17DAP	1.07318	0.881
39DAP/27DAP	0.87906	0.594
41DAP/39DAP	1.20995	0.549
42DAP/41DAP	1.26557	0.773
43DAP/42DAP	1.12843	0.976
47DAP/43DAP	1.07641	0.689
52DAP/47DAP	0.87998	0.609
57DAP/52DAP	1.12752	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12366	0.265
17DAP/reference	0.95508	0.393
27DAP/reference	0.85492	0.08
39DAP/reference	1.22194	0.012
41DAP/reference	0.95744	0.542
42DAP/reference	0.99426	0.531
43DAP/reference	1.00188	0.882
47DAP/reference	1.52853	0.001
52DAP/reference	1.46087	0.012
57DAP/reference	1.32272	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87148	0.484
27DAP/17DAP	1.03425	0.942
39DAP/27DAP	1.11208	0.57
41DAP/39DAP	1.06912	0.837
42DAP/41DAP	1.02524	0.984
43DAP/42DAP	0.93759	0.522
47DAP/43DAP	1.0662	0.699
52DAP/47DAP	1.3714	0.234
57DAP/52DAP	1.48082	0.05
57DAP/7DAP	2.51833	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93868	0.203
17DAP/reference	1.06458	1
27DAP/reference	0.99386	0.656
39DAP/reference	0.97552	0.474
41DAP/reference	0.85407	0.16
42DAP/reference	0.9339	0.144
43DAP/reference	1.04148	0.974
47DAP/reference	0.98627	0.671
52DAP/reference	0.87494	0.163
57DAP/reference	1.02301	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09365	0.75
17DAP/reference	1.04007	0.961
27DAP/reference	0.99915	0.735
39DAP/reference	1.03081	0.806
41DAP/reference	1.04348	1
42DAP/reference	1.00513	1
43DAP/reference	1.08715	0.704
47DAP/reference	0.90864	0.214
52DAP/reference	1.03663	0.629
57DAP/reference	0.95102	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92005	0.23
17DAP/reference	1.06382	0.65
27DAP/reference	0.95591	0.442
39DAP/reference	0.93178	0.271
41DAP/reference	0.79665	0.022
42DAP/reference	1.13815	0.408
43DAP/reference	0.95315	0.468
47DAP/reference	1.05961	0.73
52DAP/reference	1.31969	0.558
57DAP/reference	1.66009	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11381	0.966
26DAP/20DAP	0.77389	1
34DAP/26DAP	1.34678	1
51DAP/34DAP	1.31072	0.149
52DAP/51DAP	1.51997	0.078
53DAP/52DAP	0.81554	0.386
55DAP/53DAP	1.51808	0.312
57DAP/55DAP	0.89543	0.606
62DAP/57DAP	1.24317	0.303
68DAP/62DAP	0.93239	0.787
68DAP/14DAP	1.27886	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.3625	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.45821	0.086
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.6603	0.057
Ripe Pepper/Ripe Tomato	0.41785	0.224
Mature Eggplant/Ripe Tomato	0.35633	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15191	1
1-1-2/M82	1.16678	1
12-2/M82	0.86841	0.74
12-4/M82	1.1658	1
1-3/M82	0.91394	1
2-1-1/M82	0.89697	0.92
2-1/M82	1.61025	0.328
2-6/M82	1.05038	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.30593	1
4-1/M82	0.8987	1
4-3-2/M82	1.31117
4-3/M82	1.66977	0.268
5-3/M82	1.15233	1
6-2/M82	1.28437	0.235
6-3/M82	0.95814	1
7-1/M82	1.14697
7-2/M82	1.20539	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95236	1
IL2-6/WTpooled	1.07697	1
IL7-5/WTpooled	0.75391	1
IL7-3/WTpooled	1.31079	0.362
IL12-4/WTpooled	1.00401	0.891
IL1-4/WTpooled	1.11521	1
WT/WTpooled	0.89227	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	1.41495	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00662	1
DC3000/delta hrp 6h	0.94968	0.95
DC3000/delta hrp 12h	1.0564	1
DC3000/delta hrp 24h	1.50238	0.027

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.88663	0.413
DC3000 delta B/DC3000 delta AB	0.99447	0.892

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83408	1
Exp 36h	1.4383	0.409
Exp 60h	1.19529	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02725	1
Var 0h	0.82476	0.457
Var 12h I row2-row1	0.53136	0.338
Var 12h NI row2-row1	1.14415	0.34
Var 36h I row2-row1	0.77991	0.313
Var 36h NI row2-row1	1.688	0.482
Var 60h I row2-row1	1.50771	0.543
Var 60h NI row2-row1	1.07499	1
Time course 0hI-0hNI	1.0051	1
Time course 12hI-12hNI	0.85466	0.108
Time course 36hI-36hNI	0.72204	0.023
Time course 60hI-60hNI	0.07034	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)	0.94277	0.614
transgenic ySAMdc/azygous control (breaker)	1.40358	0.178
transgenic ySAMdc/azygous control (red)	0.9959	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.23154	0.047

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69333	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76226	1
Manapal/WT (break)	0.76417	0.333
Manapal/WT (red)	0.8581	0.188