Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.91963	0.05
27DAP/17DAP	1.18453	0.857
39DAP/27DAP	1.23613	0.433
41DAP/39DAP	0.67227	0.079
42DAP/41DAP	0.67601	0.774
43DAP/42DAP	1.02698	0.937
47DAP/43DAP	0.89097	0.634
52DAP/47DAP	1.26448	0.772
57DAP/52DAP	1.75151	0.725

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07417	0.872
17DAP/reference	1.33726	0.023
27DAP/reference	1.39305	0.067
39DAP/reference	1.53902	0.017
41DAP/reference	1.52864	0.014
42DAP/reference	1.19356	0.015
43DAP/reference	0.96506	0.555
47DAP/reference	4.92564	0.575
52DAP/reference	1.00408	0.768
57DAP/reference	1.11715	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.81194	0.036
27DAP/17DAP	0.95814	0.821
39DAP/27DAP	0.86991	0.188
41DAP/39DAP	1.32321	0.497
42DAP/41DAP	0.92129	0.535
43DAP/42DAP	0.6424	0.022
47DAP/43DAP	1.06462	0.765
52DAP/47DAP	0.87066	0.357
57DAP/52DAP	1.15671	0.262
57DAP/7DAP	0.98349	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.83878	0.024
17DAP/reference	1.95043	0.006
27DAP/reference	1.68864	0.008
39DAP/reference	1.86879	0.008
41DAP/reference	1.57974	0.009
42DAP/reference	1.23975	0.132
43DAP/reference	0.95581	0.421
47DAP/reference	1.22034	0.259
52DAP/reference	1.18777	0.459
57DAP/reference	1.58249	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83326	0.238
17DAP/reference	1.4823	0.013
27DAP/reference	1.94384	0.013
39DAP/reference	1.94247	0.011
41DAP/reference	1.37879	0.007
42DAP/reference	1.55082	0.007
43DAP/reference	1.23369	0.429
47DAP/reference	1.93234	0.008
52DAP/reference	1.9358	0.006
57DAP/reference	1.38073	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18517	0.116
17DAP/reference	1.42411	0.099
27DAP/reference	1.96902	0.014
39DAP/reference	2.12323	0.005
41DAP/reference	1.36935	0.011
42DAP/reference	1.24956	0.028
43DAP/reference	0.87298	0.095
47DAP/reference	0.95841	0.421
52DAP/reference	1.0558	0.735
57DAP/reference	1.18318	0.419

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13864	0.966
26DAP/20DAP	1.4406	0.125
34DAP/26DAP	0.98036	0.972
51DAP/34DAP	0.59698	0.061
52DAP/51DAP	0.74327	0.151
53DAP/52DAP	0.77503	0.21
55DAP/53DAP	0.84496	0.462
57DAP/55DAP	0.98225	0.863
62DAP/57DAP	1.62837	0.021
68DAP/62DAP	1.11983	0.866
68DAP/14DAP	1.16505

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.27082	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.90152	0.058
Mature Green Tomato/Ripe Tomato	2.72727
Immature Eggplant/Mature Eggplant	0.93655	0.651
Ripe Pepper/Ripe Tomato	1.13684	1
Mature Eggplant/Ripe Tomato	0.88523	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.61742	0.512
1-1-2/M82	0.99159	1
12-2/M82	0.57899	0.629
12-4/M82	0.81635	1
1-3/M82	1.45673	0.277
2-1-1/M82	0.90611	0.92
2-1/M82	1.18376	1
2-6/M82	0.80695	1
3-2/M82	1.28247
4-1-1/M82	1.06113	1
4-1/M82	1.00383	1
4-3-2/M82	1.0655	0.253
4-3/M82	0.59744	0.551
5-3/M82	1.97329	0.496
6-2/M82	0.79602	0.497
6-3/M82	1.04427	1
7-1/M82	1.29518	0.598
7-2/M82	1.29066	0.385
9-3-2/M82	0.96675	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.36793	0.277
IL2-6/WTpooled	0.94489	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.18928	1
IL12-4/WTpooled	1.16596	0.646
IL1-4/WTpooled	0.93973	1
WT/WTpooled	0.95172	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	1.11436	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0691	0.846
DC3000/delta hrp 6h	0.93536	0.95
DC3000/delta hrp 12h	0.95618	1
DC3000/delta hrp 24h	1.33885	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17033	0.27
DC3000 delta B/DC3000 delta AB	1.07184	0.614

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88439	0.328
Exp 36h	1.17684	0.489
Exp 60h	1.03942	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05808	1
Var 0h	0.56158	0.98
Var 12h I row2-row1	1.12399	0.654
Var 12h NI row2-row1	1.17677	0.281
Var 36h I row2-row1	1.14459	0.41
Var 36h NI row2-row1	0.83828	0.478
Var 60h I row2-row1	0.82481	0.582
Var 60h NI row2-row1	0.8492	0.359
Time course 0hI-0hNI	0.95867	0.791
Time course 12hI-12hNI	1.07063	0.526
Time course 36hI-36hNI	1.8176	0.005
Time course 60hI-60hNI	1.57295	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)	1.01335	1
transgenic ySAMdc/azygous control (breaker)	1.21273	0.248
transgenic ySAMdc/azygous control (red)	1.42739	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13559	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6674	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60799	1
Manapal/WT (break)	0.9806	1
Manapal/WT (red)	1.78269	0.142