Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77931	0.221
27DAP/17DAP	1.07507	0.89
39DAP/27DAP	0.93832	0.652
41DAP/39DAP	1.20245	0.584
42DAP/41DAP	0.94463	1
43DAP/42DAP	1.20944	1
47DAP/43DAP	0.7425	0.251
52DAP/47DAP	0.73346	0.407
57DAP/52DAP	0.88774	0.947

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12089	0.121
17DAP/reference	1.02174	0.585
27DAP/reference	0.98068	0.711
39DAP/reference	1.07276	0.368
41DAP/reference	0.93647	0.341
42DAP/reference	0.96974	0.211
43DAP/reference	1.10909	0.04
47DAP/reference	0.94292	0.116
52DAP/reference	1.01409	1
57DAP/reference	1.07248	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92119	0.542
27DAP/17DAP	1.07369	0.887
39DAP/27DAP	0.78655	0.046
41DAP/39DAP	0.92242	0.713
42DAP/41DAP	0.91433	0.42
43DAP/42DAP	0.97792	0.831
47DAP/43DAP	0.88185	0.239
52DAP/47DAP	0.94518	0.837
57DAP/52DAP	1.14407	0.567
57DAP/7DAP	0.53648	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2673	0.042
17DAP/reference	1.24266	0.011
27DAP/reference	1.29437	0.02
39DAP/reference	1.27487	0.069
41DAP/reference	1.34531	0.013
42DAP/reference	1.42707	0.132
43DAP/reference	1.22473	0.02
47DAP/reference	1.06023	0.776
52DAP/reference	1.16138	0.016
57DAP/reference	1.10531	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07665	0.501
17DAP/reference	1.1785	0.303
27DAP/reference	1.08235	0.526
39DAP/reference	0.91667	0.289
41DAP/reference	0.93936	0.348
42DAP/reference	0.99468	0.655
43DAP/reference	1.02358	0.986
47DAP/reference	1.01278	1
52DAP/reference	0.87572	0.203
57DAP/reference	0.8969	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51279	0.018
17DAP/reference	1.33855	0.182
27DAP/reference	1.3272	0.022
39DAP/reference	1.14669	0.227
41DAP/reference	1.23934	0.05
42DAP/reference	1.11571	0.481
43DAP/reference	1.0216	0.855
47DAP/reference	0.90818	0.145
52DAP/reference	0.89099	0.211
57DAP/reference	1.01519	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94126	1
26DAP/20DAP	0.92853	1
34DAP/26DAP	1.40169	0.819
51DAP/34DAP	1.09915	0.936
52DAP/51DAP	0.82287	1
53DAP/52DAP	0.9202	0.649
55DAP/53DAP	0.86145	0.218
57DAP/55DAP	1.01063	1
62DAP/57DAP	1.07159	1
68DAP/62DAP	0.9669	0.885
68DAP/14DAP	0.57177	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85403	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93774	0.692
Mature Green Tomato/Ripe Tomato	4.52179	0.015
Immature Eggplant/Mature Eggplant	0.38423	0.077
Ripe Pepper/Ripe Tomato	8.45246	1
Mature Eggplant/Ripe Tomato	1.77034

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02708	1
1-1-2/M82	1.06054	1
12-2/M82	N/A	N/A
12-4/M82	1.11914
1-3/M82	N/A	N/A
2-1-1/M82	0.93589	1
2-1/M82	N/A	N/A
2-6/M82	0.91044	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.35869
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.90799	0.642
6-2/M82	N/A	N/A
6-3/M82	1.09486
7-1/M82	N/A	N/A
7-2/M82	0.75357	0.313
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.25436
IL12-4/WTpooled	1.20546
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.57019

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	0.9051	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03416	0.894
DC3000/delta hrp 6h	1.35441
DC3000/delta hrp 12h	1.03465	1
DC3000/delta hrp 24h	0.85658	0.182

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.63686	0.048
DC3000 delta B/DC3000 delta AB	0.77573	0.031

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88628	1
Exp 36h	0.8373	0.661
Exp 60h	0.78542	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97094	1
Var 0h	0.75863	1
Var 12h I row2-row1	0.81486	0.363
Var 12h NI row2-row1	0.98828	0.906
Var 36h I row2-row1	0.9431	0.805
Var 36h NI row2-row1	1.32403	0.482
Var 60h I row2-row1	1.26435	0.562
Var 60h NI row2-row1	0.89841	0.932
Time course 0hI-0hNI	1.01833	1
Time course 12hI-12hNI	0.96253	0.716
Time course 36hI-36hNI	0.81744	0.029
Time course 60hI-60hNI	0.37561	0.006

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)	0.9552	0.428
transgenic ySAMdc/azygous control (breaker)	1.46938	0.172
transgenic ySAMdc/azygous control (red)	1.06201	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99541	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.44669	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2171	0.307
Manapal/WT (break)	1.17314	0.381
Manapal/WT (red)	1.16118	0.413