Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68529	0.29
27DAP/17DAP	1.4544	0.703
39DAP/27DAP	0.69058	0.335
41DAP/39DAP	1.18541	0.584
42DAP/41DAP	0.80401	0.774
43DAP/42DAP	1.1525	0.829
47DAP/43DAP	1.06944	0.859
52DAP/47DAP	0.7945	0.502
57DAP/52DAP	1.0285	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95199	0.362
17DAP/reference	0.94502	0.474
27DAP/reference	0.91867	0.314
39DAP/reference	0.92592	0.298
41DAP/reference	0.70659	0.018
42DAP/reference	0.88813	0.095
43DAP/reference	0.85966	0.135
47DAP/reference	0.88394	0.127
52DAP/reference	0.77221	0.04
57DAP/reference	0.84416	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74545	0.164
27DAP/17DAP	1.24843	0.423
39DAP/27DAP	0.82642	0.367
41DAP/39DAP	0.99894	0.997
42DAP/41DAP	1.14493	0.947
43DAP/42DAP	1.26385	0.212
47DAP/43DAP	1.09712	1
52DAP/47DAP	1.09673	0.982
57DAP/52DAP	1.11925	1
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00923	1
17DAP/reference	0.93117	0.192
27DAP/reference	0.8986	0.051
39DAP/reference	0.694	0.011
41DAP/reference	0.79775	0.07
42DAP/reference	0.70239	0.01
43DAP/reference	0.79077	0.047
47DAP/reference	1.00899	1
52DAP/reference	0.95378	0.363
57DAP/reference	0.88259	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90226	0.17
17DAP/reference	0.80808	0.066
27DAP/reference	0.88842	0.317
39DAP/reference	0.69849	0.016
41DAP/reference	0.67547	0.015
42DAP/reference	0.69857	0.061
43DAP/reference	0.77671	0.157
47DAP/reference	0.76766	0.014
52DAP/reference	0.85708	0.072
57DAP/reference	0.72375	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9956	0.75
17DAP/reference	0.78324	0.093
27DAP/reference	0.78159	0.038
39DAP/reference	0.8153	0.017
41DAP/reference	0.87459	0.237
42DAP/reference	0.68102	0.016
43DAP/reference	0.77459	0.079
47DAP/reference	0.67997	0.008
52DAP/reference	0.75372	0.109
57DAP/reference	0.91138	0.283

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14416	1
26DAP/20DAP	1.11095	0.953
34DAP/26DAP	0.92072	0.92
51DAP/34DAP	1.00798	0.807
52DAP/51DAP	0.98531	1
53DAP/52DAP	0.70396	0.063
55DAP/53DAP	0.66084	0.313
57DAP/55DAP	1.67845	0.407
62DAP/57DAP	0.86195	0.681
68DAP/62DAP	1.38898	0.285
68DAP/14DAP	1.18369	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.40558	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.40578
Mature Green Tomato/Ripe Tomato	1.07108	0.752
Immature Eggplant/Mature Eggplant	2.04074	0.05
Ripe Pepper/Ripe Tomato	3.6524	1
Mature Eggplant/Ripe Tomato	1.37644

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.87526
12-2/M82	N/A	N/A
12-4/M82	1.00999	1
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	1.29333	0.467
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.06435
7-2/M82	N/A	N/A
9-3-2/M82	0.92182	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16363	0.277
IL2-6/WTpooled	1.825	0.395
IL7-5/WTpooled	0.9185	1
IL7-3/WTpooled	0.8241
IL12-4/WTpooled	1.17667	0.785
IL1-4/WTpooled	1.1106	1
WT/WTpooled	0.97946	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93875	0.849
DC3000/delta hrp 6h	0.99542	0.95
DC3000/delta hrp 12h	0.73182	1
DC3000/delta hrp 24h	2.4713	0.192

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03727	0.598
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	0.78787	1
Exp 36h	1.17024	0.693
Exp 60h	1.05654	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97062	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.30741	0.544
Var 12h NI row2-row1	1.0534	1
Var 36h I row2-row1	1.00166	1
Var 36h NI row2-row1	1.01035	1
Var 60h I row2-row1	0.80926	0.285
Var 60h NI row2-row1	0.92155	0.818
Time course 0hI-0hNI	0.80815	0.452
Time course 12hI-12hNI	0.85633	0.239
Time course 36hI-36hNI	0.84822	0.101
Time course 60hI-60hNI	1.80262	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)	1.11246	0.312
transgenic ySAMdc/azygous control (breaker)	1.01791	1
transgenic ySAMdc/azygous control (red)	1.02304	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04703	0.204

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06804	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89395	1
Manapal/WT (break)	0.93674	1
Manapal/WT (red)	0.90361	0.503