Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.8.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08172	0.893
27DAP/17DAP	1.20498	0.845
39DAP/27DAP	0.85004	0.487
41DAP/39DAP	0.99655	0.976
42DAP/41DAP	0.97463	1
43DAP/42DAP	1.01142	0.937
47DAP/43DAP	1.19376	0.727
52DAP/47DAP	0.84887	0.605
57DAP/52DAP	0.89547	0.783

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10178	0.685
17DAP/reference	1.45955	0.02
27DAP/reference	1.18361	0.405
39DAP/reference	1.1177	0.57
41DAP/reference	1.73625	0.171
42DAP/reference	1.03427	0.608
43DAP/reference	0.98218	0.785
47DAP/reference	1.23372	0.264
52DAP/reference	1.19912	0.524
57DAP/reference	0.92666	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33542	0.036
27DAP/17DAP	0.89391	0.339
39DAP/27DAP	0.70138	0.029
41DAP/39DAP	0.88346	0.617
42DAP/41DAP	1.11024	0.687
43DAP/42DAP	0.98085	0.729
47DAP/43DAP	0.90503	0.265
52DAP/47DAP	0.96252	0.898
57DAP/52DAP	0.97823	0.773
57DAP/7DAP	0.65188	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81701	0.361
17DAP/reference	1.06297	0.518
27DAP/reference	N/A	N/A
39DAP/reference	0.94262	0.411
41DAP/reference	0.95974	0.469
42DAP/reference	0.86732	0.304
43DAP/reference	1.00172	0.502
47DAP/reference	1.26627	0.549
52DAP/reference	0.76544	0.232
57DAP/reference	1.33541	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92255	0.564
17DAP/reference	1.26274	0.518
27DAP/reference	1.12023	0.902
39DAP/reference	1.23148	0.346
41DAP/reference	1.08723	1
42DAP/reference	1.01067	0.723
43DAP/reference	0.82833	0.181
47DAP/reference	1.84637	0.247
52DAP/reference	1.27981	0.008
57DAP/reference	1.51822	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.41035
17DAP/reference	1.04044	0.924
27DAP/reference	0.6083
39DAP/reference	1.108
41DAP/reference	0.66506
42DAP/reference	0.64208	0.22
43DAP/reference	0.67912
47DAP/reference	1.12407	0.792
52DAP/reference	1.31947	0.491
57DAP/reference	1.55988	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26771	0.966
26DAP/20DAP	0.90252	1
34DAP/26DAP	1.31399	0.819
51DAP/34DAP	0.571	0.049
52DAP/51DAP	1.31808	0.056
53DAP/52DAP	0.65694	0.049
55DAP/53DAP	1.08846	0.666
57DAP/55DAP	0.99098	0.855
62DAP/57DAP	1.06403	1
68DAP/62DAP	0.61944	0.641
68DAP/14DAP	1.09655	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68971	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.64024	0.02
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	0.92451
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	1.15714	1
4-3-2/M82	1.11512	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	0.98567	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.38102	0.277
IL2-6/WTpooled	1.19995	0.46
IL7-5/WTpooled	1.26006	1
IL7-3/WTpooled	1.48353	0.362
IL12-4/WTpooled	1.29285	0.52
IL1-4/WTpooled	1.15994	1
WT/WTpooled	0.96952	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	0.88783	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.94875
DC3000/delta hrp 24h	5.1776	0.118

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.65385	0.023
DC3000 delta B/DC3000 delta AB	0.69057	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98376	1
Var 0h	1.22741	0.339
Var 12h I row2-row1	0.77232	0.353
Var 12h NI row2-row1	0.96507	0.906
Var 36h I row2-row1	1.10188	1
Var 36h NI row2-row1	1.21521	0.482
Var 60h I row2-row1	1.00429	1
Var 60h NI row2-row1	0.95866	1
Time course 0hI-0hNI	0.94725	0.639
Time course 12hI-12hNI	0.97861	0.864
Time course 36hI-36hNI	0.84224	0.027
Time course 60hI-60hNI	0.16749	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.5405	0.248
transgenic ySAMdc/azygous control (red)	1.23876	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1843	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06848	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A