Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74803	0.153
27DAP/17DAP	0.94265	0.869
39DAP/27DAP	0.87385	0.594
41DAP/39DAP	1.20284	0.468
42DAP/41DAP	0.9546	1
43DAP/42DAP	0.87464	0.467
47DAP/43DAP	1.20051	0.442
52DAP/47DAP	1.15651	0.982
57DAP/52DAP	1.06933	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06735	0.207
17DAP/reference	0.97256	0.503
27DAP/reference	0.84903	0.019
39DAP/reference	0.94637	0.342
41DAP/reference	1.00575	1
42DAP/reference	1.07245	0.137
43DAP/reference	1.11278	0.028
47DAP/reference	1.1209	0.057
52DAP/reference	0.9079	0.135
57DAP/reference	0.8672	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73385	0.194
27DAP/17DAP	0.93949	0.854
39DAP/27DAP	1.86449	0.373
41DAP/39DAP	1.14979	1
42DAP/41DAP	1.04085	0.932
43DAP/42DAP	1.42036	0.273
47DAP/43DAP	1.15958	0.234
52DAP/47DAP	1.17653	0.508
57DAP/52DAP	0.93187	0.622
57DAP/7DAP	0.97587	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90468	0.203
17DAP/reference	1.09099	1
27DAP/reference	0.97774	0.494
39DAP/reference	1.11404	0.297
41DAP/reference	1.03997	0.949
42DAP/reference	0.99512	0.641
43DAP/reference	1.30055	0.015
47DAP/reference	0.99514	1
52DAP/reference	1.6428	0.007
57DAP/reference	1.17616	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94095	0.426
17DAP/reference	0.95285	0.434
27DAP/reference	0.84266	0.144
39DAP/reference	0.77847	0.043
41DAP/reference	0.7577	0.013
42DAP/reference	0.75562	0.019
43DAP/reference	0.88579	0.196
47DAP/reference	0.82115	0.012
52DAP/reference	0.88228	0.101
57DAP/reference	1.10794	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02944	0.984
17DAP/reference	0.87753	0.205
27DAP/reference	0.97916	0.624
39DAP/reference	1.02475	0.858
41DAP/reference	1.06235	0.554
42DAP/reference	1.19135	0.408
43DAP/reference	1.50368	0.037
47DAP/reference	1.1549	0.015
52DAP/reference	1.45611	0.059
57DAP/reference	0.89102	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95934	1
26DAP/20DAP	0.68995
34DAP/26DAP	6.65534	0.819
51DAP/34DAP	1.29528	0.143
52DAP/51DAP	1.00231	1
53DAP/52DAP	1.22156	0.753
55DAP/53DAP	1.24439	0.904
57DAP/55DAP	1.01102	0.935
62DAP/57DAP	1.14536	0.217
68DAP/62DAP	1.20341	0.919
68DAP/14DAP	1.0307	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.31256	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6557	0.165
Mature Green Tomato/Ripe Tomato	0.43838	0.026
Immature Eggplant/Mature Eggplant	1.20413	0.248
Ripe Pepper/Ripe Tomato	0.18546	0.224
Mature Eggplant/Ripe Tomato	0.09619	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14931	0.486
1-1-2/M82	1.01739	1
12-2/M82	1.09342	0.61
12-4/M82	0.92914	0.619
1-3/M82	1.73567	0.277
2-1-1/M82	2.20813
2-1/M82	1.40296	0.345
2-6/M82	2.30597	0.355
3-2/M82	1.14891
4-1-1/M82	2.69409	0.968
4-1/M82	1.36815
4-3-2/M82	2.46871
4-3/M82	2.35635	1
5-3/M82	0.76491	0.395
6-2/M82	1.55413	1
6-3/M82	0.44904	0.715
7-1/M82	0.92012
7-2/M82	1.90577	0.291
9-3-2/M82	0.89017

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.99828	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11126	1
IL12-4/WTpooled	1.0785	0.785
IL1-4/WTpooled	0.90182
WT/WTpooled	0.99343	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	1.64072	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07772	0.914
DC3000/delta hrp 6h	1.00586	0.95
DC3000/delta hrp 12h	1.08973	1
DC3000/delta hrp 24h	1.49793	0.031

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.14414	0.042
DC3000 delta B/DC3000 delta AB	1.7543	0.079

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.3782	0.254
Exp 36h	1.28158	0.693
Exp 60h	1.69635	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9461	1
Var 0h	0.81177	0.933
Var 12h I row2-row1	0.78259	0.565
Var 12h NI row2-row1	1.01926	1
Var 36h I row2-row1	1.30116	0.489
Var 36h NI row2-row1	0.62177	0.61
Var 60h I row2-row1	2.64009	1
Var 60h NI row2-row1	0.78044	0.359
Time course 0hI-0hNI	1.05205	0.833
Time course 12hI-12hNI	0.99628	1
Time course 36hI-36hNI	2.35072	0.005
Time course 60hI-60hNI	6.96305	0.009

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)	1.15479	0.331
transgenic ySAMdc/azygous control (breaker)	0.66514	0.15
transgenic ySAMdc/azygous control (red)	1.05151	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06425	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.36484	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91591	1
Manapal/WT (break)	1.03823	1
Manapal/WT (red)	0.52234	0.181