Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.11.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7249	0.249
27DAP/17DAP	1.39183	0.735
39DAP/27DAP	1.11532	0.84
41DAP/39DAP	1.22673	0.498
42DAP/41DAP	1.02776	1
43DAP/42DAP	0.98999	0.937
47DAP/43DAP	0.93515	0.851
52DAP/47DAP	0.97749	0.736
57DAP/52DAP	1.56481	0.561

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28882	0.081
17DAP/reference	1.63089
27DAP/reference	1.31553
39DAP/reference	1.00425
41DAP/reference	1.86658
42DAP/reference	0.89836	0.315
43DAP/reference	0.62883
47DAP/reference	0.86786	0.503
52DAP/reference	N/A	N/A
57DAP/reference	0.5186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07495	0.762
27DAP/17DAP	0.9353	0.887
39DAP/27DAP	0.83679	0.356
41DAP/39DAP	1.27559	0.69
42DAP/41DAP	0.9732	0.732
43DAP/42DAP	1.27522	0.134
47DAP/43DAP	1.16091	0.563
52DAP/47DAP	0.96118	0.899
57DAP/52DAP	1.21539	0.622
57DAP/7DAP	1.35448	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87828	0.122
17DAP/reference	0.90085	0.124
27DAP/reference	0.86716	0.058
39DAP/reference	0.92574	0.198
41DAP/reference	0.85477	0.133
42DAP/reference	0.83671	0.037
43DAP/reference	0.82945	0.095
47DAP/reference	0.89203	0.383
52DAP/reference	1.01582	1
57DAP/reference	0.963	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12077	0.463
17DAP/reference	1.09239	0.773
27DAP/reference	1.31395	0.834
39DAP/reference	1.24796	0.529
41DAP/reference	0.84223	0.183
42DAP/reference	1.05158	0.723
43DAP/reference	1.14397	0.939
47DAP/reference	1.49085	0.603
52DAP/reference	0.96791	0.469
57DAP/reference	1.42889	0.039

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94115	0.169
17DAP/reference	0.8828	0.281
27DAP/reference	0.87736	0.174
39DAP/reference	0.8527	0.147
41DAP/reference	0.94869	0.459
42DAP/reference	0.86784	0.087
43DAP/reference	0.98401	0.712
47DAP/reference	0.54473	0.004
52DAP/reference	0.94562	0.611
57DAP/reference	1.07217	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01968	1
26DAP/20DAP	1.36075	0.195
34DAP/26DAP	1.22556	1
51DAP/34DAP	0.67389	0.067
52DAP/51DAP	1.30856	0.467
53DAP/52DAP	0.598
55DAP/53DAP	1.01947	0.894
57DAP/55DAP	0.97334	0.828
62DAP/57DAP	1.23573	0.158
68DAP/62DAP	0.85961	0.314
68DAP/14DAP	1.05939	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16814	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.44783
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.69801
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.86938
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.07661
6-2/M82	N/A	N/A
6-3/M82	1.01998
7-1/M82	N/A	N/A
7-2/M82	1.19869
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85912
IL2-6/WTpooled	0.8255	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.25821	1
IL12-4/WTpooled	1.05724	0.646
IL1-4/WTpooled	1.08445	1
WT/WTpooled	0.95779	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	1.2142	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89769	0.849
DC3000/delta hrp 6h	0.88277	0.95
DC3000/delta hrp 12h	1.13057	1
DC3000/delta hrp 24h	1.24806	0.09

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	1.02065	1
Exp 36h	1.2124	1
Exp 60h	1.20863	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02765
Var 0h	0.9933	1
Var 12h I row2-row1	0.95087	0.627
Var 12h NI row2-row1	1.39585	0.649
Var 36h I row2-row1	1.27768	0.339
Var 36h NI row2-row1	0.71007	1
Var 60h I row2-row1	0.92861	0.832
Var 60h NI row2-row1	0.78363	0.756
Time course 0hI-0hNI	0.9364	0.719
Time course 12hI-12hNI	1.19663	0.07
Time course 36hI-36hNI	1.65441	0.005
Time course 60hI-60hNI	2.47987	0.008

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)	1.05276	0.541
transgenic ySAMdc/azygous control (breaker)	1.04924	1
transgenic ySAMdc/azygous control (red)	0.88881	1

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)	0.89507	1
Manapal/WT (break)	1.06473	0.14
Manapal/WT (red)	0.99095	0.863