Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.5.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73739	0.125
27DAP/17DAP	0.73216	0.257
39DAP/27DAP	1.34363	0.504
41DAP/39DAP	1.03568	0.806
42DAP/41DAP	0.9535	1
43DAP/42DAP	1.88541	0.031
47DAP/43DAP	0.50716	0.058
52DAP/47DAP	1.19537	0.809
57DAP/52DAP	1.09399	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14949	0.05
17DAP/reference	1.21183	0.055
27DAP/reference	1.04834	0.721
39DAP/reference	1.04248	0.679
41DAP/reference	0.91776	0.341
42DAP/reference	1.44062	0.002
43DAP/reference	1.3726	0.008
47DAP/reference	0.83705	0.035
52DAP/reference	0.63899	0.013
57DAP/reference	0.76945	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80336	0.105
27DAP/17DAP	1.59536	0.057
39DAP/27DAP	0.70283	0.029
41DAP/39DAP	0.85105	0.398
42DAP/41DAP	1.36299	0.102
43DAP/42DAP	1.4853	0.014
47DAP/43DAP	1.10322	0.681
52DAP/47DAP	0.6296	0.048
57DAP/52DAP	0.85939	0.466
57DAP/7DAP	0.89933	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29707	0.126
17DAP/reference	1.02132	1
27DAP/reference	1.01262	1
39DAP/reference	1.08734	0.436
41DAP/reference	1.07102	0.614
42DAP/reference	1.07951	0.405
43DAP/reference	1.45401	0.043
47DAP/reference	1.22368	0.149
52DAP/reference	0.85182	0.023
57DAP/reference	0.68533	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0081	0.993
17DAP/reference	1.03071	0.839
27DAP/reference	0.81482	0.049
39DAP/reference	0.88501	0.189
41DAP/reference	0.84855	0.011
42DAP/reference	0.89289	0.028
43DAP/reference	0.94901	0.361
47DAP/reference	1.23655	0.063
52DAP/reference	0.86352	0.066
57DAP/reference	1.13083	0.066

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31025	0.064
17DAP/reference	1.25591	0.602
27DAP/reference	0.90971	0.257
39DAP/reference	0.83728	0.063
41DAP/reference	0.88951	0.107
42DAP/reference	1.30331	0.086
43DAP/reference	1.81697	0.008
47DAP/reference	0.75743	0.028
52DAP/reference	0.80933	0.16
57DAP/reference	0.59997	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28226	0.678
26DAP/20DAP	0.7342	0.317
34DAP/26DAP	1.00804	1
51DAP/34DAP	0.86019	0.64
52DAP/51DAP	1.01837	0.954
53DAP/52DAP	1.0025	0.983
55DAP/53DAP	0.95771	0.761
57DAP/55DAP	0.79782	0.527
62DAP/57DAP	1.03682	0.723
68DAP/62DAP	0.66929	0.065
68DAP/14DAP	0.58316	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.37004	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.74159	0.058
Mature Green Tomato/Ripe Tomato	2.81555	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	11.4086	0.256
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04484
1-1-2/M82	1.352	1
12-2/M82	0.42598
12-4/M82	0.97824	1
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.00783	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.75451
7-2/M82	0.77263	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91606	0.321
IL2-6/WTpooled	0.48566	0.358
IL7-5/WTpooled	0.88306	1
IL7-3/WTpooled	1.10551	1
IL12-4/WTpooled	0.56686	0.581
IL1-4/WTpooled	1.00381	1
WT/WTpooled	1.03276	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08061	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06546	1
DC3000/delta hrp 24h	1.31096	0.567

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06797	1
Exp 36h	0.92925	0.749
Exp 60h	1.02917	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99668	1
Var 0h	1.27257	0.98
Var 12h I row2-row1	1.83608	0.473
Var 12h NI row2-row1	1.36289	0.235
Var 36h I row2-row1	2.00679	0.742
Var 36h NI row2-row1	0.79457	0.478
Var 60h I row2-row1	1.40403	0.543
Var 60h NI row2-row1	0.98951	1
Time course 0hI-0hNI	0.73598	0.051
Time course 12hI-12hNI	0.92071	0.484
Time course 36hI-36hNI	0.87601	0.215
Time course 60hI-60hNI	0.31723	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)	1.47527	0.256
transgenic ySAMdc/azygous control (breaker)	2.05387	0.178
transgenic ySAMdc/azygous control (red)	2.09232	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9421	0.093

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04993	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1119	1
Manapal/WT (break)	0.84886	1
Manapal/WT (red)	1.11947	1