Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22853	0.588
27DAP/17DAP	1.01345	1
39DAP/27DAP	1.81347	0.332
41DAP/39DAP	1.53589	0.212
42DAP/41DAP	2.33133	0.016
43DAP/42DAP	1.21113	0.831
47DAP/43DAP	0.7415	0.274
52DAP/47DAP	0.56339	0.071
57DAP/52DAP	1.28855	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.52664	0.025
17DAP/reference	0.67391	0.007
27DAP/reference	0.85577	0.101
39DAP/reference	1.10128	0.786
41DAP/reference	0.89069	0.267
42DAP/reference	1.38962	0.001
43DAP/reference	2.3855	0.006
47DAP/reference	3.15089	0.001
52DAP/reference	2.74207	0.007
57DAP/reference	2.37439	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1755	0.348
27DAP/17DAP	1.09055	0.951
39DAP/27DAP	1.6124	0.062
41DAP/39DAP	0.59473	0.03
42DAP/41DAP	1.70858	0.03
43DAP/42DAP	2.09317	0.018
47DAP/43DAP	0.85356	0.192
52DAP/47DAP	1.7553	0.115
57DAP/52DAP	1.24444	0.417
57DAP/7DAP	1.19141	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78713	0.129
17DAP/reference	0.96075	0.064
27DAP/reference	0.91073	0.011
39DAP/reference	0.86294	0.02
41DAP/reference	0.88499	0.04
42DAP/reference	1.14225	0.046
43DAP/reference	1.35903	0.021
47DAP/reference	0.99483	1
52DAP/reference	0.95325	0.254
57DAP/reference	0.95884	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50814	0.007
17DAP/reference	0.5204	0.003
27DAP/reference	0.78498	0.054
39DAP/reference	0.72338	0.011
41DAP/reference	0.65287	0.013
42DAP/reference	0.74933	0.019
43DAP/reference	0.8101	0.032
47DAP/reference	1.05599	0.89
52DAP/reference	0.64142	0.004
57DAP/reference	0.70718	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81136	0.197
17DAP/reference	0.71246	0.1
27DAP/reference	0.93406	0.032
39DAP/reference	0.87173	0.069
41DAP/reference	0.8541	0.077
42DAP/reference	1.03175	0.789
43DAP/reference	1.54915	0.034
47DAP/reference	2.82187	0.005
52DAP/reference	1.90358	0.119
57DAP/reference	3.22914	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.83094	0.787
26DAP/20DAP	1.05172
34DAP/26DAP	1.34652	1
51DAP/34DAP	0.89756
52DAP/51DAP	2.1466	0.207
53DAP/52DAP	0.96975	0.83
55DAP/53DAP	1.25479	0.614
57DAP/55DAP	1.03324	1
62DAP/57DAP	0.64484	0.028
68DAP/62DAP	1.23835	0.653
68DAP/14DAP	2.61915	0.019

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.07309	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.26551	0.067
Mature Green Tomato/Ripe Tomato	0.1875	0.017
Immature Eggplant/Mature Eggplant	0.99706	1
Ripe Pepper/Ripe Tomato	0.37638	0.224
Mature Eggplant/Ripe Tomato	0.12214	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16535	1
1-1-2/M82	1.34199	1
12-2/M82	0.78917
12-4/M82	1.44196	1
1-3/M82	2.63301	0.479
2-1-1/M82	1.09139	0.422
2-1/M82	0.8294	0.519
2-6/M82	1.11928	1
3-2/M82	1.29569	0.461
4-1-1/M82	0.82284	1
4-1/M82	2.03166	0.418
4-3-2/M82	0.87931	1
4-3/M82	1.16717	1
5-3/M82	1.10646	1
6-2/M82	0.28431
6-3/M82	0.65441	0.916
7-1/M82	1.05439	1
7-2/M82	1.40004	0.385
9-3-2/M82	0.96371	1

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	0.71194
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.87471

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	1.38678	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89436	1
DC3000/delta hrp 6h	1.10761	1
DC3000/delta hrp 12h	1.16742	1
DC3000/delta hrp 24h	0.8956	0.503

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31063	0.034
DC3000 delta B/DC3000 delta AB	1.15239

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20394	1
Exp 36h	N/A	N/A
Exp 60h	0.9912	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96939	1
Var 0h	0.88088	0.933
Var 12h I row2-row1	0.98672	1
Var 12h NI row2-row1	0.85206	0.494
Var 36h I row2-row1	0.63091	1
Var 36h NI row2-row1	0.78908	0.482
Var 60h I row2-row1	1.00417	1
Var 60h NI row2-row1	1.24381	0.293
Time course 0hI-0hNI	0.96464	0.807
Time course 12hI-12hNI	0.9245	0.451
Time course 36hI-36hNI	0.9296	0.468
Time course 60hI-60hNI	0.59872	0.007

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)	1.01008	0.921
transgenic ySAMdc/azygous control (breaker)	0.74175	0.139
transgenic ySAMdc/azygous control (red)	1.1011	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97207	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82584	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08926	1
Manapal/WT (break)	1.15654	0.381
Manapal/WT (red)	1.12888	1