Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.038	0.997
27DAP/17DAP	1.16978	0.92
39DAP/27DAP	0.94974	0.663
41DAP/39DAP	1.03425	0.921
42DAP/41DAP	0.60259	0.262
43DAP/42DAP	0.98471	0.93
47DAP/43DAP	0.80476	0.416
52DAP/47DAP	1.8909	0.205
57DAP/52DAP	1.04434	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67593	0.025
17DAP/reference	0.63947	0.009
27DAP/reference	0.82715	0.095
39DAP/reference	0.68478	0.022
41DAP/reference	0.54374	0.018
42DAP/reference	0.76809	0.004
43DAP/reference	0.93246	0.259
47DAP/reference	0.91067	0.174
52DAP/reference	1.07194	0.633
57DAP/reference	1.15001	0.344

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19293	0.774
27DAP/17DAP	1.10712	0.867
39DAP/27DAP	0.89398	0.132
41DAP/39DAP	1.43033	0.258
42DAP/41DAP	1.10654	1
43DAP/42DAP	1.44297	0.324
47DAP/43DAP	0.884	0.75
52DAP/47DAP	1.71926	0.224
57DAP/52DAP	1.00172	0.813
57DAP/7DAP	1.10798	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0278	1
17DAP/reference	0.93441	0.064
27DAP/reference	1.15743	0.246
39DAP/reference	0.85697	0.073
41DAP/reference	0.91734	0.184
42DAP/reference	0.90857	0.111
43DAP/reference	1.02921	1
47DAP/reference	0.90863	0.168
52DAP/reference	1.08735	0.401
57DAP/reference	1.22165	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70573	0.048
17DAP/reference	0.49764	0.003
27DAP/reference	0.77012	0.05
39DAP/reference	0.79275	0.039
41DAP/reference	0.85731	0.105
42DAP/reference	0.81295	0.089
43DAP/reference	0.60877	0.02
47DAP/reference	0.6619	0.01
52DAP/reference	0.75949	0.016
57DAP/reference	0.54726	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87991	0.158
17DAP/reference	0.85121	0.243
27DAP/reference	0.94556	0.218
39DAP/reference	0.94864	0.179
41DAP/reference	0.89742	0.185
42DAP/reference	1.07706	0.4
43DAP/reference	0.9657	0.523
47DAP/reference	0.89679	0.231
52DAP/reference	0.71284	0.061
57DAP/reference	1.28706	0.106

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10773	1
26DAP/20DAP	0.96999	1
34DAP/26DAP	0.99613	1
51DAP/34DAP	0.33918
52DAP/51DAP	1.42609	0.616
53DAP/52DAP	1.71573	0.783
55DAP/53DAP	1.34631	0.537
57DAP/55DAP	0.61226	0.044
62DAP/57DAP	1.47313	0.678
68DAP/62DAP	7.52637	0.013
68DAP/14DAP	6.06844	0.019

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.48301	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.24437	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	13.4885

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.87627
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	1.0851
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.90003
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.37474	0.277
IL2-6/WTpooled	0.65099	0.473
IL7-5/WTpooled	1.26697	0.792
IL7-3/WTpooled	1.27642	1
IL12-4/WTpooled	1.26792	0.553
IL1-4/WTpooled	0.90531	0.699
WT/WTpooled	1.02312	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	1.41319

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02518	1
DC3000/delta hrp 6h	1.40628	0.631
DC3000/delta hrp 12h	0.61572	0.266
DC3000/delta hrp 24h	1.66264	0.023

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	0.77172	1
Exp 36h	1.79637	1
Exp 60h	1.15121	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98828	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.97393	1
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.83018	0.575
Var 36h NI row2-row1	1.38806	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.36736	0.904
Time course 0hI-0hNI	1.12885	0.799
Time course 12hI-12hNI	1.11354	0.55
Time course 36hI-36hNI	0.59201	0.023
Time course 60hI-60hNI	0.96716	0.319

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)	0.9541	0.662
transgenic ySAMdc/azygous control (breaker)	0.74319	0.173
transgenic ySAMdc/azygous control (red)	0.81193	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04081	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09675	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24731	0.14
Manapal/WT (break)	1.08575	1
Manapal/WT (red)	1.36919	0.222