Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.16.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33883	0.739
27DAP/17DAP	1.06429	0.956
39DAP/27DAP	1.05668	0.885
41DAP/39DAP	1.12801	0.894
42DAP/41DAP	1.39834	0.672
43DAP/42DAP	1.06003	0.945
47DAP/43DAP	1.08054	1
52DAP/47DAP	1.15643	0.96
57DAP/52DAP	1.27179	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24413	0.057
17DAP/reference	1.15948	0.22
27DAP/reference	1.10292	0.648
39DAP/reference	1.1506	0.368
41DAP/reference	1.1061	0.421
42DAP/reference	1.1157	0.055
43DAP/reference	1.06404	0.547
47DAP/reference	1.18043	0.125
52DAP/reference	1.14711	0.335
57DAP/reference	1.29533	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78553	0.057
27DAP/17DAP	0.74981	0.684
39DAP/27DAP	0.98624	1
41DAP/39DAP	1.18791	0.781
42DAP/41DAP	0.82039	0.208
43DAP/42DAP	0.97693	0.729
47DAP/43DAP	1.05242	0.951
52DAP/47DAP	0.84881	0.522
57DAP/52DAP	0.86818	0.48
57DAP/7DAP	1.63646	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96365	0.55
17DAP/reference	0.85677	0.021
27DAP/reference	1.04913	0.301
39DAP/reference	1.02912	1
41DAP/reference	1.19816	0.086
42DAP/reference	1.41032	0.024
43DAP/reference	1.17749	0.2
47DAP/reference	1.43292	0.067
52DAP/reference	1.6441	0.017
57DAP/reference	2.05313	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8601	0.19
17DAP/reference	1.06862	0.892
27DAP/reference	1.00862	0.79
39DAP/reference	0.95693	0.359
41DAP/reference	1.12898	0.737
42DAP/reference	1.12697	0.532
43DAP/reference	1.09015	0.885
47DAP/reference	1.18892	0.059
52DAP/reference	1.05265	0.882
57DAP/reference	1.19347	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07813	0.575
17DAP/reference	0.92344	0.444
27DAP/reference	0.91422	0.108
39DAP/reference	1.33162	0.02
41DAP/reference	1.01856	0.889
42DAP/reference	1.11694	0.612
43DAP/reference	1.18618	0.19
47DAP/reference	0.97457	0.525
52DAP/reference	1.36308	0.284
57DAP/reference	1.38992	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.69422	0.916
26DAP/20DAP	1.31817	0.713
34DAP/26DAP	1.07373	1
51DAP/34DAP	1.29216	0.706
52DAP/51DAP	0.99693	1
53DAP/52DAP	0.78281	0.465
55DAP/53DAP	1.20988	0.422
57DAP/55DAP	0.87581	0.587
62DAP/57DAP	0.8964	0.871
68DAP/62DAP	1.24328	0.813
68DAP/14DAP	1.04331	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23228	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.8114	0.026
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.04222
Mature Eggplant/Ripe Tomato	0.50824	0.234

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	1.14396
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.2191
7-2/M82	N/A	N/A
9-3-2/M82	1.04972

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	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.22243
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	1.3134	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03805	1
DC3000/delta hrp 6h	1.07208	1
DC3000/delta hrp 12h	1.09607	1
DC3000/delta hrp 24h	1.39946

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	1.13191	0.254
Exp 36h	0.99705	1
Exp 60h	1.13395	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97008	1
Var 0h	0.98607	1
Var 12h I row2-row1	0.79595	0.705
Var 12h NI row2-row1	2.33054	1
Var 36h I row2-row1	0.94953	1
Var 36h NI row2-row1	0.79054	0.645
Var 60h I row2-row1	1.04703	0.543
Var 60h NI row2-row1	0.93945	1
Time course 0hI-0hNI	0.97518	0.886
Time course 12hI-12hNI	0.96756	0.769
Time course 36hI-36hNI	1.26235	0.007
Time course 60hI-60hNI	1.62265	0.012

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)	0.95688	0.529
transgenic ySAMdc/azygous control (breaker)	0.98423	1
transgenic ySAMdc/azygous control (red)	0.94523	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01776	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84479	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96061	1
Manapal/WT (break)	1.0617	1
Manapal/WT (red)	1.03324	1