Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.12.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02641	0.997
27DAP/17DAP	1.2395	0.873
39DAP/27DAP	1.20685	0.816
41DAP/39DAP	1.00207	0.915
42DAP/41DAP	0.931	1
43DAP/42DAP	0.84315	0.801
47DAP/43DAP	0.86177	0.555
52DAP/47DAP	1.32938	0.688
57DAP/52DAP	0.71738	0.344

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09651	0.403
17DAP/reference	1.3773	0.013
27DAP/reference	1.0903	0.468
39DAP/reference	1.20593	0.165
41DAP/reference	1.20553	0.014
42DAP/reference	0.91491	0.041
43DAP/reference	1.23247	0.04
47DAP/reference	0.96421	0.366
52DAP/reference	1.01268	1
57DAP/reference	0.91783	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07458	0.961
27DAP/17DAP	1.02025	0.995
39DAP/27DAP	0.9657	0.898
41DAP/39DAP	0.98112	0.997
42DAP/41DAP	1.12841	0.984
43DAP/42DAP	0.94443	0.597
47DAP/43DAP	1.16405	0.396
52DAP/47DAP	1.04626	0.907
57DAP/52DAP	0.92934	0.494
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90223	0.224
17DAP/reference	1.08213	0.754
27DAP/reference	0.88018	0.088
39DAP/reference	0.66152	0.011
41DAP/reference	0.83644	0.044
42DAP/reference	0.81769	0.019
43DAP/reference	0.85615	0.069
47DAP/reference	0.82154	0.101
52DAP/reference	0.74804	0.038
57DAP/reference	0.81997	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96947	0.736
17DAP/reference	1.18573	0.584
27DAP/reference	1.27018	0.128
39DAP/reference	1.27967	0.2
41DAP/reference	1.03153	1
42DAP/reference	1.03262	0.969
43DAP/reference	1.30248	0.154
47DAP/reference	1.14448	0.105
52DAP/reference	1.39365	0.017
57DAP/reference	1.13403	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9363	0.391
17DAP/reference	1.01444	1
27DAP/reference	1.26176	0.044
39DAP/reference	1.03345	1
41DAP/reference	0.89059	0.331
42DAP/reference	0.96733	0.671
43DAP/reference	1.07059	0.973
47DAP/reference	1.02993	0.667
52DAP/reference	1.11539	0.674
57DAP/reference	0.80405	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	1.05123	1
34DAP/26DAP	0.76913	0.067
51DAP/34DAP	0.80762	0.121
52DAP/51DAP	0.98095	1
53DAP/52DAP	1.17737	0.662
55DAP/53DAP	1.21117	0.671
57DAP/55DAP	0.79873	0.259
62DAP/57DAP	1.17059	0.678
68DAP/62DAP	1.11151	0.907
68DAP/14DAP	1.47135

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88685	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.95357	0.06
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	N/A	N/A
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	0.87053	1
6-2/M82	N/A	N/A
6-3/M82	0.99521
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.23186
IL2-6/WTpooled	1.18041	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.77828	0.31
IL12-4/WTpooled	1.15015	0.737
IL1-4/WTpooled	0.63787	0.444
WT/WTpooled	0.88604	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	1.03653	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.39599	0.921
DC3000/delta hrp 6h	1.01442
DC3000/delta hrp 12h	0.99626	1
DC3000/delta hrp 24h	0.76286	0.129

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.63375
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	0.90102	0.265
Exp 36h	1.00883	0.693
Exp 60h	1.44614	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99638	1
Var 0h	1.22124	0.311
Var 12h I row2-row1	1.12763	0.506
Var 12h NI row2-row1	0.95903	0.394
Var 36h I row2-row1	1.00299	1
Var 36h NI row2-row1	1.03893	1
Var 60h I row2-row1	0.91812	0.832
Var 60h NI row2-row1	0.71836	1
Time course 0hI-0hNI	1.04235	0.852
Time course 12hI-12hNI	1.05601	0.773
Time course 36hI-36hNI	0.9777	0.549
Time course 60hI-60hNI	0.79446	0.026

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)	1.04857	0.612
transgenic ySAMdc/azygous control (breaker)	1.20439	1
transgenic ySAMdc/azygous control (red)	1.03738	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00731	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30147	0.277

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)	0.94605	1
Manapal/WT (red)	0.99798	1