Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.1.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04661	0.847
27DAP/17DAP	1.11243	0.849
39DAP/27DAP	0.90837	0.631
41DAP/39DAP	1.23223	0.715
42DAP/41DAP	1.03806	1
43DAP/42DAP	1.11168	1
47DAP/43DAP	1.2916	0.659
52DAP/47DAP	1.55234	0.462
57DAP/52DAP	1.56705	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75402	0.024
17DAP/reference	0.69857	0.008
27DAP/reference	0.91655	0.163
39DAP/reference	0.7233	0.014
41DAP/reference	0.64432	0.008
42DAP/reference	1.27866	0.019
43DAP/reference	0.86274	0.08
47DAP/reference	1.12653	0.182
52DAP/reference	1.50732	0.01
57DAP/reference	1.29774	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23912	0.258
27DAP/17DAP	0.82741	0.475
39DAP/27DAP	1.07405	0.611
41DAP/39DAP	1.26246	0.579
42DAP/41DAP	0.82204	0.109
43DAP/42DAP	1.07962	0.627
47DAP/43DAP	1.42963	0.581
52DAP/47DAP	7.28747	0.106
57DAP/52DAP	1.21297	0.358
57DAP/7DAP	1.56655	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.05241	0.038
17DAP/reference	1.46479	0.045
27DAP/reference	1.38152	0.246
39DAP/reference	1.12563	0.57
41DAP/reference	2.22886	0.03
42DAP/reference	1.89988	0.021
43DAP/reference	2.16113	0.011
47DAP/reference	1.79306	0.127
52DAP/reference	1.23355	0.043
57DAP/reference	1.7314	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78585	0.067
17DAP/reference	0.74492	0.011
27DAP/reference	1.09002	0.847
39DAP/reference	1.10704	0.978
41DAP/reference	1.17322	0.255
42DAP/reference	1.30134	0.045
43DAP/reference	0.9349	0.423
47DAP/reference	0.78368	0.032
52DAP/reference	0.90214	0.302
57DAP/reference	0.72847	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98446	0.607
17DAP/reference	0.98111	0.681
27DAP/reference	1.3631	0.029
39DAP/reference	1.11169	0.711
41DAP/reference	1.0556	0.961
42DAP/reference	1.53512	0.056
43DAP/reference	1.56264	0.044
47DAP/reference	0.94301	0.348
52DAP/reference	1.32541	0.257
57DAP/reference	2.17486	0.015

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95028	1
26DAP/20DAP	1.43356	0.152
34DAP/26DAP	1.40164
51DAP/34DAP	1.3573	0.215
52DAP/51DAP	1.04391	0.925
53DAP/52DAP	1.77319	0.054
55DAP/53DAP	0.95083	0.698
57DAP/55DAP	0.67859	0.066
62DAP/57DAP	1.43015	0.018
68DAP/62DAP	1.87924	0.188
68DAP/14DAP	3.16471	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73607	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76195	0.217
Mature Green Tomato/Ripe Tomato	0.64331	0.025
Immature Eggplant/Mature Eggplant	0.93216	0.72
Ripe Pepper/Ripe Tomato	5.17993	0.256
Mature Eggplant/Ripe Tomato	2.49583	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.42314
12-2/M82	N/A	N/A
12-4/M82	0.81137	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.93759
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	0.93081
4-3/M82	N/A	N/A
5-3/M82	1.33091
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.8974
9-3-2/M82	0.98331

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96901	1
IL2-6/WTpooled	1.04241	1
IL7-5/WTpooled	0.92783	1
IL7-3/WTpooled	0.86657	0.418
IL12-4/WTpooled	1.03308	0.525
IL1-4/WTpooled	1.09612	1
WT/WTpooled	1.01662	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	1.0279	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0625	0.921
DC3000/delta hrp 6h	0.81178	0.914
DC3000/delta hrp 12h	0.98469	1
DC3000/delta hrp 24h	1.16348	0.673

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	0.9371

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87654	1
Exp 36h	1.29047	1
Exp 60h	1.18005	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96114	1
Var 0h	0.50438	0.936
Var 12h I row2-row1	1.11563	0.654
Var 12h NI row2-row1	1.08097	1
Var 36h I row2-row1	3.25968	1
Var 36h NI row2-row1	1.18604	0.482
Var 60h I row2-row1	1.01803	0.562
Var 60h NI row2-row1	0.97098	0.904
Time course 0hI-0hNI	0.98526	0.97
Time course 12hI-12hNI	0.9025	0.185
Time course 36hI-36hNI	0.77668	0.034
Time course 60hI-60hNI	0.36405	0.005

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)	1.33976	0.347
transgenic ySAMdc/azygous control (breaker)	1.63553	1
transgenic ySAMdc/azygous control (red)	1.00928	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.31541	0.032

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80719	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17608	0.307
Manapal/WT (break)	1.7772	1
Manapal/WT (red)	0.99386	1