Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.7.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25684	0.336
27DAP/17DAP	1.3477	0.872
39DAP/27DAP	1.03588	0.876
41DAP/39DAP	1.14333	0.522
42DAP/41DAP	0.90076	1
43DAP/42DAP	1.16803	0.968
47DAP/43DAP	1.34135	0.513
52DAP/47DAP	1.07859	0.956
57DAP/52DAP	1.07446	0.886

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05532	0.638
17DAP/reference	1.0388	0.294
27DAP/reference	1.04058	0.559
39DAP/reference	1.01385	0.771
41DAP/reference	1.05087	0.624
42DAP/reference	1.13867	0.017
43DAP/reference	0.97656	0.675
47DAP/reference	1.09184	0.215
52DAP/reference	1.27775	0.114
57DAP/reference	1.01676	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12653	0.398
27DAP/17DAP	1.00423	1
39DAP/27DAP	0.95238	0.754
41DAP/39DAP	1.00149	1
42DAP/41DAP	1.06443	1
43DAP/42DAP	1.1542	0.478
47DAP/43DAP	1.59769	0.471
52DAP/47DAP	1.13163	0.66
57DAP/52DAP	1.88146	0.115
57DAP/7DAP	0.98127	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1011	0.393
17DAP/reference	1.08073	0.971
27DAP/reference	1.09738	0.664
39DAP/reference	1.0935	0.634
41DAP/reference	0.91579	0.311
42DAP/reference	1.10225	0.686
43DAP/reference	0.93139	0.266
47DAP/reference	1.08252	0.932
52DAP/reference	1.23239	0.139
57DAP/reference	0.98005	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14164	0.65
17DAP/reference	1.1867	0.074
27DAP/reference	1.29554	0.093
39DAP/reference	1.26752	0.15
41DAP/reference	1.17844	0.427
42DAP/reference	1.2291	0.105
43DAP/reference	1.06141	0.997
47DAP/reference	1.15604	0.016
52DAP/reference	1.25086	0.012
57DAP/reference	1.2143	0.06

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08761	0.644
17DAP/reference	1.20049	0.412
27DAP/reference	1.137	0.298
39DAP/reference	1.1146
41DAP/reference	1.01629	1
42DAP/reference	1.10157	0.556
43DAP/reference	1.45133	0.011
47DAP/reference	1.07736	0.655
52DAP/reference	1.07921	0.614
57DAP/reference	0.9931	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01878	1
26DAP/20DAP	1.0503	0.931
34DAP/26DAP	1.48224	0.819
51DAP/34DAP	1.18444	0.869
52DAP/51DAP	1.02624	1
53DAP/52DAP	1.0294	0.978
55DAP/53DAP	0.94386	0.807
57DAP/55DAP	1.03665	0.986
62DAP/57DAP	0.8336	0.681
68DAP/62DAP	0.77013	0.543
68DAP/14DAP	0.70084	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77199	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.97591	0.209
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.22103	0.293
Mature Eggplant/Ripe Tomato	0.29586

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	0.80128
12-4/M82	N/A	N/A
1-3/M82	1.37624
2-1-1/M82	1.13388
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	0.85936	1
4-1/M82	N/A	N/A
4-3-2/M82	1.05875
4-3/M82	0.75882
5-3/M82	1.09434
6-2/M82	1.07125
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82627
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.08478	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.25198	0.671
DC3000/delta hrp 6h	1.04416	1
DC3000/delta hrp 12h	1.10923	1
DC3000/delta hrp 24h	1.12247	0.502

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	0.8299	0.326

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	0.96633	1
Var 0h	0.95104	1
Var 12h I row2-row1	0.88753	0.338
Var 12h NI row2-row1	0.88659	0.627
Var 36h I row2-row1	1.099	0.309
Var 36h NI row2-row1	1.38342	1
Var 60h I row2-row1	1.00589	1
Var 60h NI row2-row1	1.52192	0.904
Time course 0hI-0hNI	0.98917	1
Time course 12hI-12hNI	0.90638	0.347
Time course 36hI-36hNI	0.88151	0.035
Time course 60hI-60hNI	0.56044	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)	0.93734	0.529
transgenic ySAMdc/azygous control (breaker)	1.18677	0.248
transgenic ySAMdc/azygous control (red)	0.96873	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95791	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18816	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.6816	0.172
Manapal/WT (break)	0.7852	0.333
Manapal/WT (red)	0.92983	0.503