Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.11.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8754	0.522
27DAP/17DAP	1.13208	0.833
39DAP/27DAP	1.23344	0.693
41DAP/39DAP	1.19377	0.549
42DAP/41DAP	0.68034	0.262
43DAP/42DAP	0.93618	0.877
47DAP/43DAP	0.96684	0.779
52DAP/47DAP	1.12142	0.813
57DAP/52DAP	0.98472	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63683	0.007
17DAP/reference	0.99216	0.664
27DAP/reference	0.80499	0.417
39DAP/reference	0.91903
41DAP/reference	1.2459	0.91
42DAP/reference	1.00792	0.337
43DAP/reference	0.35244
47DAP/reference	1.09162	0.627
52DAP/reference	0.3554
57DAP/reference	5.55798	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75697	0.066
27DAP/17DAP	1.23759	0.253
39DAP/27DAP	1.10351	0.611
41DAP/39DAP	0.97417	0.973
42DAP/41DAP	1.04238	0.916
43DAP/42DAP	1.07228	0.478
47DAP/43DAP	1.02945	0.88
52DAP/47DAP	0.83672	0.334
57DAP/52DAP	1.21868	0.238
57DAP/7DAP	0.9212	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90544	0.27
17DAP/reference	1.11143	0.123
27DAP/reference	1.0994	0.197
39DAP/reference	0.89972	0.109
41DAP/reference	0.9326	0.259
42DAP/reference	0.89802	0.178
43DAP/reference	0.88006	0.145
47DAP/reference	1.02935	1
52DAP/reference	0.8703	0.213
57DAP/reference	0.95166	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16788	0.582
17DAP/reference	0.87786	0.26
27DAP/reference	0.68345	0.108
39DAP/reference	0.92499	0.339
41DAP/reference	0.84425	0.124
42DAP/reference	2.30925
43DAP/reference	1.33036	0.713
47DAP/reference	0.51473	0.038
52DAP/reference	1.09605	0.444
57DAP/reference	1.23649	0.094

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94563	0.455
17DAP/reference	1.00303	0.886
27DAP/reference	1.23158	0.059
39DAP/reference	1.10964	0.075
41DAP/reference	1.02842	0.889
42DAP/reference	0.93947	0.361
43DAP/reference	1.03053	0.828
47DAP/reference	1.05378	1
52DAP/reference	0.91161	0.415
57DAP/reference	0.81867	0.154

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9514	1
26DAP/20DAP	1.12209	0.855
34DAP/26DAP	0.88731	0.519
51DAP/34DAP	1.03393	0.84
52DAP/51DAP	0.86205	1
53DAP/52DAP	1.35968	0.196
55DAP/53DAP	0.93686	0.709
57DAP/55DAP	1.74188	0.274
62DAP/57DAP	0.66129	0.466
68DAP/62DAP	1.01197	0.885
68DAP/14DAP	0.89723	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02198	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.67686	0.881
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.3125

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86757	0.944
1-1-2/M82	1.18546
12-2/M82	N/A	N/A
12-4/M82	1.00669	1
1-3/M82	0.65133	0.376
2-1-1/M82	1.16571
2-1/M82	N/A	N/A
2-6/M82	1.06989	1
3-2/M82	0.90246	1
4-1-1/M82	1.01201	1
4-1/M82	0.91357	1
4-3-2/M82	0.91352	1
4-3/M82	0.95001	1
5-3/M82	0.90913	0.642
6-2/M82	N/A	N/A
6-3/M82	0.99126	1
7-1/M82	1.14465	1
7-2/M82	0.88166	0.881
9-3-2/M82	0.94419	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	3.57979
IL2-6/WTpooled	1.10456	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.00232	1
IL12-4/WTpooled	1.16271	0.532
IL1-4/WTpooled	0.93957
WT/WTpooled	0.94025	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	1.24164	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04456	0.921
DC3000/delta hrp 6h	1.01583
DC3000/delta hrp 12h	1.05432	1
DC3000/delta hrp 24h	0.98832	0.988

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.42322	0.042
DC3000 delta B/DC3000 delta AB	1.35166	0.101

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.39307	0.693
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04613	1
Var 0h	2.84692	0.258
Var 12h I row2-row1	1.06213	0.222
Var 12h NI row2-row1	1.07752	0.281
Var 36h I row2-row1	0.81923	1
Var 36h NI row2-row1	0.57355	0.61
Var 60h I row2-row1	0.94669	0.306
Var 60h NI row2-row1	0.87644	0.483
Time course 0hI-0hNI	0.99516	1
Time course 12hI-12hNI	1.3425	0.018
Time course 36hI-36hNI	2.27258	0.004
Time course 60hI-60hNI	4.80586	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)	1.09823	0.325
transgenic ySAMdc/azygous control (breaker)	1.02086	1
transgenic ySAMdc/azygous control (red)	0.95695	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66583	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94841	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.02466	1