Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08105	0.863
27DAP/17DAP	1.22637	0.847
39DAP/27DAP	1.07574	0.894
41DAP/39DAP	1.30324	0.26
42DAP/41DAP	1.21123	0.954
43DAP/42DAP	0.77917	0.467
47DAP/43DAP	0.78944	0.386
52DAP/47DAP	1.76991	0.344
57DAP/52DAP	0.86491	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12596	0.101
17DAP/reference	1.04066	0.355
27DAP/reference	1.0047	1
39DAP/reference	0.99726	0.991
41DAP/reference	1.17783	0.023
42DAP/reference	1.0952	0.019
43DAP/reference	1.04694	0.518
47DAP/reference	0.98221	0.418
52DAP/reference	0.85943	0.036
57DAP/reference	0.89795	0.106

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97499	0.732
27DAP/17DAP	0.99173	0.943
39DAP/27DAP	1.10208	0.436
41DAP/39DAP	1.90113	0.03
42DAP/41DAP	0.73391	0.034
43DAP/42DAP	1.03166	0.788
47DAP/43DAP	1.20838	0.094
52DAP/47DAP	0.99736	0.962
57DAP/52DAP	1.08992	0.858
57DAP/7DAP	0.94891	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14157	0.093
17DAP/reference	1.39227	0.007
27DAP/reference	1.16876	0.007
39DAP/reference	1.42749	0.009
41DAP/reference	1.51954	0.014
42DAP/reference	1.63138	0.008
43DAP/reference	1.58256	0.007
47DAP/reference	1.32737	0.142
52DAP/reference	1.47469	0.01
57DAP/reference	1.5805	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0659	0.538
17DAP/reference	1.18307	0.024
27DAP/reference	0.90091	0.195
39DAP/reference	0.8923	0.183
41DAP/reference	0.89563	0.124
42DAP/reference	1.13136	0.519
43DAP/reference	1.25337	0.386
47DAP/reference	1.21944	0.045
52DAP/reference	1.03533	0.789
57DAP/reference	1.52816	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06958	0.356
17DAP/reference	1.12706	0.189
27DAP/reference	1.16738	0.032
39DAP/reference	1.07089	0.134
41DAP/reference	1.09185	0.174
42DAP/reference	1.05795	0.789
43DAP/reference	0.99644	0.685
47DAP/reference	1.07475	0.388
52DAP/reference	1.27692	0.063
57DAP/reference	0.99452	0.553

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07895	0.966
26DAP/20DAP	0.81654	0.512
34DAP/26DAP	1.0304	1
51DAP/34DAP	0.9218	0.508
52DAP/51DAP	1.00321	1
53DAP/52DAP	1.15369	0.662
55DAP/53DAP	1.10395	0.494
57DAP/55DAP	1.06122	0.955
62DAP/57DAP	1.20628	0.057
68DAP/62DAP	0.93501	0.7
68DAP/14DAP	0.64752	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80779	0.129

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.91542	0.487
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.29505	0.293
Mature Eggplant/Ripe Tomato	0.08017	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86914
1-1-2/M82	0.77393	1
12-2/M82	N/A	N/A
12-4/M82	1.15685	1
1-3/M82	0.78368	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.15722
3-2/M82	1.05516
4-1-1/M82	1.48772
4-1/M82	N/A	N/A
4-3-2/M82	0.94812	1
4-3/M82	1.80278
5-3/M82	1.02559	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.02912	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88402	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.08613	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.89588	0.444
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	1.39301	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0102	1
DC3000/delta hrp 6h	9.47039
DC3000/delta hrp 12h	1.06628	1
DC3000/delta hrp 24h	1.35161	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.42951	0.042
DC3000 delta B/DC3000 delta AB	1.01442	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.31238	0.693
Exp 60h	2.23588	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07699	1
Var 0h	0.57471	1
Var 12h I row2-row1	0.97172	0.948
Var 12h NI row2-row1	1.35755
Var 36h I row2-row1	1.1523	1
Var 36h NI row2-row1	0.85513
Var 60h I row2-row1	2.43086	0.562
Var 60h NI row2-row1	0.91368	0.977
Time course 0hI-0hNI	1.02332	1
Time course 12hI-12hNI	0.96249	0.759
Time course 36hI-36hNI	1.62414	0.005
Time course 60hI-60hNI	1.55089	0.009

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)	2.27067	0.541
transgenic ySAMdc/azygous control (breaker)	0.37856	0.131
transgenic ySAMdc/azygous control (red)	1.15071	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02617	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.37006	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.21716	0.172
Manapal/WT (break)	0.94423	1
Manapal/WT (red)	N/A	N/A