Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03671	0.863
27DAP/17DAP	0.96641	0.975
39DAP/27DAP	1.11047	0.658
41DAP/39DAP	0.98081	0.902
42DAP/41DAP	0.92959	0.774
43DAP/42DAP	0.98706	0.931
47DAP/43DAP	0.92806	0.744
52DAP/47DAP	0.9949	0.924
57DAP/52DAP	1.02263	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05318	0.154
17DAP/reference	0.99772	0.957
27DAP/reference	1.01086	0.909
39DAP/reference	0.98212	0.663
41DAP/reference	0.95736	0.434
42DAP/reference	1.02067	0.901
43DAP/reference	1.01588	0.928
47DAP/reference	1.01124	1
52DAP/reference	0.96737	0.382
57DAP/reference	1.0448	0.582

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07672	0.29
27DAP/17DAP	0.98687	0.878
39DAP/27DAP	0.95055	0.316
41DAP/39DAP	0.98068	0.98
42DAP/41DAP	0.96883	0.693
43DAP/42DAP	0.98214	0.597
47DAP/43DAP	0.99817	1
52DAP/47DAP	0.95341	0.77
57DAP/52DAP	0.89766	0.188
57DAP/7DAP	0.94828	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57318	0.026
17DAP/reference	1.39895	0.007
27DAP/reference	1.12245	0.246
39DAP/reference	1.35173	0.01
41DAP/reference	1.35343	0.011
42DAP/reference	1.26944	0.03
43DAP/reference	1.37258	0.007
47DAP/reference	1.40651	0.028
52DAP/reference	1.60017	0.009
57DAP/reference	1.45348	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02635	0.569
17DAP/reference	1.17629	0.011
27DAP/reference	1.1017	0.235
39DAP/reference	1.08706	0.164
41DAP/reference	1.05584	0.599
42DAP/reference	0.9978	0.723
43DAP/reference	0.95464	0.581
47DAP/reference	0.9607	0.284
52DAP/reference	1.02505	0.444
57DAP/reference	1.0703	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28674	0.038
17DAP/reference	1.10658	0.65
27DAP/reference	1.14069	0.298
39DAP/reference	1.28749	0.019
41DAP/reference	1.32554	0.008
42DAP/reference	1.13742	0.327
43DAP/reference	1.15264	0.126
47DAP/reference	1.08429	0.355
52DAP/reference	1.04994	0.674
57DAP/reference	1.09637	0.378

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00093	1
26DAP/20DAP	1.05953	0.834
34DAP/26DAP	0.96988	0.917
51DAP/34DAP	1.02316	0.909
52DAP/51DAP	0.96827	1
53DAP/52DAP	0.97627	0.844
55DAP/53DAP	0.95113	0.336
57DAP/55DAP	0.986	0.88
62DAP/57DAP	1.03358	0.902
68DAP/62DAP	1.02423	1
68DAP/14DAP	0.97449	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0573	0.229

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.14074	0.113
Mature Green Tomato/Ripe Tomato	1.25495	0.166
Immature Eggplant/Mature Eggplant	1.79116	0.05
Ripe Pepper/Ripe Tomato	1.6145	1
Mature Eggplant/Ripe Tomato	1.7109	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03172	0.551
1-1-2/M82	1.01846	1
12-2/M82	1.12057	1
12-4/M82	0.9518	0.282
1-3/M82	1.00673	1
2-1-1/M82	1.07444	0.764
2-1/M82	1.03093
2-6/M82	0.90779	1
3-2/M82	1.10407	0.717
4-1-1/M82	0.9512	1
4-1/M82	0.98183	1
4-3-2/M82	1.08442	1
4-3/M82	1.01488	1
5-3/M82	1.01972	1
6-2/M82	1.00301	1
6-3/M82	1.02304	1
7-1/M82	0.98279	1
7-2/M82	0.99627	1
9-3-2/M82	1.04281	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.92456	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90971	0.31
IL12-4/WTpooled	0.98016	1
IL1-4/WTpooled	0.99599	1
WT/WTpooled	0.97103	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	1.14141	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06552	0.921
DC3000/delta hrp 6h	1.00293	0.95
DC3000/delta hrp 12h	0.93344	1
DC3000/delta hrp 24h	1.03977	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12025	0.044
DC3000 delta B/DC3000 delta AB	1.15627	0.265

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07109	1
Exp 36h	1.21405	1
Exp 60h	1.16654	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94628	1
Var 0h	1.11889	0.274
Var 12h I row2-row1	0.95855	0.856
Var 12h NI row2-row1	1.15134	0.649
Var 36h I row2-row1	1.32959	0.339
Var 36h NI row2-row1	0.76836	0.478
Var 60h I row2-row1	1.15383	1
Var 60h NI row2-row1	0.809	0.458
Time course 0hI-0hNI	1.08217	0.799
Time course 12hI-12hNI	0.98117	0.906
Time course 36hI-36hNI	1.61951	0.005
Time course 60hI-60hNI	2.61913	0.008

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)	0.82078	0.301
transgenic ySAMdc/azygous control (breaker)	0.85191	0.251
transgenic ySAMdc/azygous control (red)	1.0443	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02036	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73033	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96733	1
Manapal/WT (break)	0.75588	0.299
Manapal/WT (red)	1.57416	0.222