Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.10.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.03066	0.443
27DAP/17DAP	0.85738	0.602
39DAP/27DAP	1.1338	0.944
41DAP/39DAP	0.66624	0.096
42DAP/41DAP	0.62555	0.397
43DAP/42DAP	1.21426	0.835
47DAP/43DAP	1.04175	1
52DAP/47DAP	1.14871	0.946
57DAP/52DAP	1.12702	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17162	0.132
17DAP/reference	1.27953	0.282
27DAP/reference	2.08972	0.012
39DAP/reference	1.89882	0.074
41DAP/reference	1.4659	0.03
42DAP/reference	0.69587	0.085
43DAP/reference	0.68298	0.015
47DAP/reference	0.7541	0.019
52DAP/reference	0.74479	0.031
57DAP/reference	0.88823	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87923	0.323
27DAP/17DAP	1.27295	0.136
39DAP/27DAP	0.70213	0.028
41DAP/39DAP	1.51357	0.663
42DAP/41DAP	1.17541	0.708
43DAP/42DAP	0.40368	0.022
47DAP/43DAP	1.05693	0.948
52DAP/47DAP	1.26355	0.414
57DAP/52DAP	1.3333	0.315
57DAP/7DAP	0.43403	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13542	0.16
17DAP/reference	1.14488	0.123
27DAP/reference	1.0739	0.551
39DAP/reference	1.12433	0.333
41DAP/reference	0.96207	0.412
42DAP/reference	0.93335	0.248
43DAP/reference	0.77741	0.026
47DAP/reference	0.78224	0.057
52DAP/reference	0.69489	0.02
57DAP/reference	0.67979	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28658	0.097
17DAP/reference	1.3715	0.012
27DAP/reference	1.3269	0.087
39DAP/reference	1.42431	0.047
41DAP/reference	1.14783	0.209
42DAP/reference	1.42545	0.011
43DAP/reference	1.26813	0.038
47DAP/reference	1.04784	0.695
52DAP/reference	0.84642	0.203
57DAP/reference	0.88226	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02991	0.758
17DAP/reference	1.01516	0.912
27DAP/reference	1.0034	1
39DAP/reference	1.32019	0.019
41DAP/reference	1.11924	0.455
42DAP/reference	0.93627	0.134
43DAP/reference	0.69622	0.024
47DAP/reference	0.57498	0.063
52DAP/reference	0.62198	0.063
57DAP/reference	0.84978	0.118

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06158	1
26DAP/20DAP	1.66684	0.166
34DAP/26DAP	0.92494	0.857
51DAP/34DAP	0.61139	0.057
52DAP/51DAP	0.82032	1
53DAP/52DAP	0.84536	0.426
55DAP/53DAP	0.93475	0.462
57DAP/55DAP	0.74253	0.259
62DAP/57DAP	1.07965	1
68DAP/62DAP	4.09498	0.155
68DAP/14DAP	0.61587	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.49608	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	20.18	0.058
Mature Green Tomato/Ripe Tomato	6.91727	0.015
Immature Eggplant/Mature Eggplant	1.10608	0.259
Ripe Pepper/Ripe Tomato	1.30645	1
Mature Eggplant/Ripe Tomato	4.38387	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.09596	1
12-2/M82	0.97393
12-4/M82	1.39226	1
1-3/M82	0.83422
2-1-1/M82	1.0816	1
2-1/M82	N/A	N/A
2-6/M82	0.6173	0.501
3-2/M82	0.98769
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.46054	0.253
4-3/M82	0.72625	0.72
5-3/M82	1.03174	1
6-2/M82	1.22071
6-3/M82	1.16699	1
7-1/M82	0.80206	0.509
7-2/M82	1.0573
9-3-2/M82	1.52311

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.40473	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.84213	0.418
IL12-4/WTpooled	0.99885	1
IL1-4/WTpooled	1.08487	1
WT/WTpooled	0.98915	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	0.90992	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07578	0.921
DC3000/delta hrp 6h	0.92602	0.95
DC3000/delta hrp 12h	1.08713	1
DC3000/delta hrp 24h	0.60986	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11566	0.355
DC3000 delta B/DC3000 delta AB	1.06698	0.636

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93702	1
Exp 36h	0.72897	0.426
Exp 60h	0.64922	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01976	1
Var 0h	0.51651	0.936
Var 12h I row2-row1	1.15881	1
Var 12h NI row2-row1	1.00985	1
Var 36h I row2-row1	0.90768	0.805
Var 36h NI row2-row1	1.48299	0.482
Var 60h I row2-row1	0.88316	0.306
Var 60h NI row2-row1	1.1228	0.904
Time course 0hI-0hNI	0.97095	0.87
Time course 12hI-12hNI	0.88952	0.224
Time course 36hI-36hNI	0.72444	0.023
Time course 60hI-60hNI	0.49852	0.006

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)	1.11535	0.654
transgenic ySAMdc/azygous control (breaker)	0.87661	0.49
transgenic ySAMdc/azygous control (red)	0.9736	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12367	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82923	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7569	1
Manapal/WT (break)	0.97663	1
Manapal/WT (red)	1.4157	0.142