Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.9.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04098	0.911
27DAP/17DAP	0.96951	0.939
39DAP/27DAP	1.47955	0.139
41DAP/39DAP	0.7288	0.247
42DAP/41DAP	1.09915	1
43DAP/42DAP	1.37515	0.894
47DAP/43DAP	0.85213	0.546
52DAP/47DAP	1.18022	0.906
57DAP/52DAP	1.07858	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31432	0.025
17DAP/reference	1.09138	0.248
27DAP/reference	1.05739	0.599
39DAP/reference	0.95096	0.446
41DAP/reference	0.92659	0.341
42DAP/reference	1.11251	0.01
43DAP/reference	1.06764	0.142
47DAP/reference	1.09901	0.433
52DAP/reference	0.77954	0.022
57DAP/reference	0.8576	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91763	0.27
27DAP/17DAP	1.29865	0.138
39DAP/27DAP	0.80981	0.144
41DAP/39DAP	1.02592	0.98
42DAP/41DAP	1.25993	0.2
43DAP/42DAP	1.16717	0.134
47DAP/43DAP	1.07517	0.749
52DAP/47DAP	0.99825	0.97
57DAP/52DAP	0.95809	0.584
57DAP/7DAP	1.16437	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.00739	0.027
17DAP/reference	1.18593	0.07
27DAP/reference	1.24715	0.007
39DAP/reference	1.43699	0.007
41DAP/reference	1.20204	0.199
42DAP/reference	1.21767	0.03
43DAP/reference	1.92416	0.008
47DAP/reference	1.52974	0.057
52DAP/reference	1.59122	0.025
57DAP/reference	1.63493	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14023	0.254
17DAP/reference	1.25648	0.104
27DAP/reference	1.13486	0.23
39DAP/reference	1.00288	0.661
41DAP/reference	0.95998	0.357
42DAP/reference	0.92448	0.289
43DAP/reference	1.09478	0.885
47DAP/reference	0.99884	0.749
52DAP/reference	0.85989	0.121
57DAP/reference	1.02551	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34224	0.025
17DAP/reference	1.08501	0.405
27DAP/reference	1.17532	0.111
39DAP/reference	1.32946	0.033
41DAP/reference	1.1177	0.15
42DAP/reference	1.22715	0.194
43DAP/reference	1.39463	0.03
47DAP/reference	1.11586	0.029
52DAP/reference	1.48454	0.076
57DAP/reference	0.78713	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15515	0.966
26DAP/20DAP	1.60149	0.12
34DAP/26DAP	1.09068	1
51DAP/34DAP	1.93112	0.03
52DAP/51DAP	0.79402	1
53DAP/52DAP	1.08955	0.697
55DAP/53DAP	0.77725	0.033
57DAP/55DAP	1.2694	0.906
62DAP/57DAP	0.60388	0.003
68DAP/62DAP	0.80631	0.378
68DAP/14DAP	0.8741	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84842	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58172	0.139
Mature Green Tomato/Ripe Tomato	0.88984	0.487
Immature Eggplant/Mature Eggplant	0.52397	0.062
Ripe Pepper/Ripe Tomato	1.19975	1
Mature Eggplant/Ripe Tomato	0.3978	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.72888	0.613
1-1-2/M82	1.23891	1
12-2/M82	1.00701	0.955
12-4/M82	1.18127	1
1-3/M82	2.38825
2-1-1/M82	1.13009	0.764
2-1/M82	1.02183	1
2-6/M82	0.87464	1
3-2/M82	0.84917	0.455
4-1-1/M82	0.8807	1
4-1/M82	1.92745	0.853
4-3-2/M82	1.61632	0.253
4-3/M82	1.3149	0.268
5-3/M82	1.05667	1
6-2/M82	1.04208	1
6-3/M82	0.74819	0.559
7-1/M82	1.02857	1
7-2/M82	1.38003	0.299
9-3-2/M82	1.40624	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07009	1
IL2-6/WTpooled	0.71493	1
IL7-5/WTpooled	1.17485	0.792
IL7-3/WTpooled	1.28393	0.362
IL12-4/WTpooled	1.08494	0.891
IL1-4/WTpooled	1.12045	1
WT/WTpooled	0.92464	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	1.13139	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94531	1
DC3000/delta hrp 6h	1.3053	1
DC3000/delta hrp 12h	1.08855	1
DC3000/delta hrp 24h	0.85739	0.323

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87602	0.293
DC3000 delta B/DC3000 delta AB	1.04761	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09133	0.254
Exp 36h	0.96858	0.943
Exp 60h	1.00416	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05659	1
Var 0h	0.98362	1
Var 12h I row2-row1	0.89628	0.627
Var 12h NI row2-row1	1.12075	0.649
Var 36h I row2-row1	1.18278	0.298
Var 36h NI row2-row1	0.99598	1
Var 60h I row2-row1	0.83348	0.439
Var 60h NI row2-row1	0.86056	0.483
Time course 0hI-0hNI	1.12244	0.297
Time course 12hI-12hNI	0.99757	1
Time course 36hI-36hNI	0.90165	0.047
Time course 60hI-60hNI	1.33869	0.025

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)	0.98553	0.862
transgenic ySAMdc/azygous control (breaker)	0.82466	0.251
transgenic ySAMdc/azygous control (red)	0.98188	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.241	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95359	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80243	0.172
Manapal/WT (break)	1.04254	1
Manapal/WT (red)	0.99417	0.863