Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.2.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92856	0.532
27DAP/17DAP	0.9653	0.967
39DAP/27DAP	1.02449	1
41DAP/39DAP	1.09232	0.318
42DAP/41DAP	1.03322	0.992
43DAP/42DAP	0.95403	0.813
47DAP/43DAP	0.87731	0.565
52DAP/47DAP	0.97616	0.908
57DAP/52DAP	0.96516	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96617	0.293
17DAP/reference	1.06321	0.412
27DAP/reference	1.00394	1
39DAP/reference	0.9499	0.306
41DAP/reference	0.93313	0.201
42DAP/reference	1.08137	0.068
43DAP/reference	1.05045	0.569
47DAP/reference	1.05001	0.154
52DAP/reference	1.09609	0.633
57DAP/reference	1.04731	0.405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05165	0.558
27DAP/17DAP	1.03543	0.9
39DAP/27DAP	0.99014	1
41DAP/39DAP	0.9466	0.713
42DAP/41DAP	0.98694	0.84
43DAP/42DAP	1.04505	0.297
47DAP/43DAP	0.97881	0.833
52DAP/47DAP	1.01419	0.956
57DAP/52DAP	0.94763	0.391
57DAP/7DAP	0.95258	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87128
17DAP/reference	0.99774	1
27DAP/reference	0.99823	0.748
39DAP/reference	1.10013	0.032
41DAP/reference	0.96589	0.341
42DAP/reference	1.00652	1
43DAP/reference	1.09015	0.111
47DAP/reference	0.90186	0.168
52DAP/reference	1.09027	0.076
57DAP/reference	1.099	0.1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94621	0.296
17DAP/reference	1.02894	0.658
27DAP/reference	1.00362	1
39DAP/reference	1.00277	0.745
41DAP/reference	0.98131	0.432
42DAP/reference	1.01483	1
43DAP/reference	0.99051	0.736
47DAP/reference	1.00079	0.833
52DAP/reference	0.83711	0.01
57DAP/reference	0.86788	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08329	0.224
17DAP/reference	1.07907	0.233
27DAP/reference	1.14128	0.031
39DAP/reference	1.09616	0.12
41DAP/reference	1.08022	0.1
42DAP/reference	1.08467	0.51
43DAP/reference	1.21057	0.024
47DAP/reference	1.2745	0.053
52DAP/reference	1.13256	0.278
57DAP/reference	1.45953	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02875	0.966
26DAP/20DAP	0.97411	1
34DAP/26DAP	0.9244	0.61
51DAP/34DAP	0.99981	0.967
52DAP/51DAP	0.93305	0.045
53DAP/52DAP	0.94837	0.767
55DAP/53DAP	0.96058	0.735
57DAP/55DAP	1.13017	0.745
62DAP/57DAP	1.10712	0.098
68DAP/62DAP	1.04085	0.878
68DAP/14DAP	1.13071	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90249	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90941	0.471
Mature Green Tomato/Ripe Tomato	0.83017	0.446
Immature Eggplant/Mature Eggplant	0.50484	0.062
Ripe Pepper/Ripe Tomato	1.53421	1
Mature Eggplant/Ripe Tomato	1.50181	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01612	1
1-1-2/M82	0.94471	1
12-2/M82	0.9161	0.955
12-4/M82	1.00986	1
1-3/M82	1.0032	1
2-1-1/M82	0.79893	0.465
2-1/M82	0.92462	1
2-6/M82	0.94668	1
3-2/M82	0.97938	1
4-1-1/M82	1.00444	1
4-1/M82	0.88428	0.665
4-3-2/M82	1.00793	1
4-3/M82	0.95138	0.72
5-3/M82	0.97665	1
6-2/M82	1.00695	1
6-3/M82	0.9477	1
7-1/M82	0.94211	0.509
7-2/M82	0.91776	0.796
9-3-2/M82	0.9909	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73938	0.247
IL2-6/WTpooled	1.22537	0.395
IL7-5/WTpooled	1.23522	0.792
IL7-3/WTpooled	0.91764	1
IL12-4/WTpooled	1.0378	0.624
IL1-4/WTpooled	0.93694	0.834
WT/WTpooled	1.02814	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	1.06723	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98229	1
DC3000/delta hrp 6h	1.00302	0.95
DC3000/delta hrp 12h	1.05977	1
DC3000/delta hrp 24h	N/A	N/A

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	0.83348	0.036

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.27238	1
Exp 36h	0.91667	0.82
Exp 60h	0.84758	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01516	1
Var 0h	0.51875	0.98
Var 12h I row2-row1	1.00381	1
Var 12h NI row2-row1	0.98987	1
Var 36h I row2-row1	1.21078	0.742
Var 36h NI row2-row1	0.98686	0.852
Var 60h I row2-row1	1.02555	1
Var 60h NI row2-row1	0.96111	1
Time course 0hI-0hNI	0.99651	1
Time course 12hI-12hNI	0.97056	0.79
Time course 36hI-36hNI	0.9859	0.601
Time course 60hI-60hNI	0.47508	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)	0.9493	0.485
transgenic ySAMdc/azygous control (breaker)	1.41909	0.248
transgenic ySAMdc/azygous control (red)	2.13256	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05615	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.54006	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.82395	0.09
Manapal/WT (break)	1.92852	0.381
Manapal/WT (red)	2.19842	0.164