Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.8.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92774	0.578
27DAP/17DAP	1.27493	0.791
39DAP/27DAP	0.75319	0.537
41DAP/39DAP	1.32825	0.624
42DAP/41DAP	1.37734	0.691
43DAP/42DAP	0.79496	0.693
47DAP/43DAP	1.92204	0.216
52DAP/47DAP	1.5275	0.344
57DAP/52DAP	0.98897	0.978

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83605	0.06
17DAP/reference	0.80571	0.008
27DAP/reference	0.99113	0.797
39DAP/reference	1.19286	0.108
41DAP/reference	1.08978	0.587
42DAP/reference	0.82636	0.006
43DAP/reference	0.95061	0.611
47DAP/reference	1.0449	0.773
52DAP/reference	1.58049	0.011
57DAP/reference	1.27591	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.54151	0.438
27DAP/17DAP	0.70459	0.279
39DAP/27DAP	1.29681	0.182
41DAP/39DAP	0.87392	0.645
42DAP/41DAP	1.64677	0.139
43DAP/42DAP	0.40257	0.022
47DAP/43DAP	0.85905	0.543
52DAP/47DAP	1.02991	1
57DAP/52DAP	0.87975	0.428
57DAP/7DAP	1.54672	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99734	0.758
17DAP/reference	0.939	0.295
27DAP/reference	1.02086	0.698
39DAP/reference	1.26293	0.333
41DAP/reference	0.98437	0.538
42DAP/reference	1.27677	0.308
43DAP/reference	1.23893	0.087
47DAP/reference	1.23729	0.44
52DAP/reference	1.20658	0.159
57DAP/reference	0.81616	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88239	0.277
17DAP/reference	0.77767	0.004
27DAP/reference	1.01236	1
39DAP/reference	1.0128	0.661
41DAP/reference	0.90451	0.16
42DAP/reference	0.82712	0.05
43DAP/reference	0.88827	0.181
47DAP/reference	0.84359	0.042
52DAP/reference	1.01041	1
57DAP/reference	0.93835	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9288	0.335
17DAP/reference	0.88527	0.243
27DAP/reference	1.01097	1
39DAP/reference	0.95498	0.43
41DAP/reference	1.04784	0.939
42DAP/reference	0.91161	0.287
43DAP/reference	0.84124	0.051
47DAP/reference	0.76407	0.052
52DAP/reference	1.29695	1
57DAP/reference	1.04063	0.786

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05891	0.966
26DAP/20DAP	1.23552	1
34DAP/26DAP	1.81522	0.078
51DAP/34DAP	1.6772
52DAP/51DAP	0.69586	0.065
53DAP/52DAP	0.99183	0.998
55DAP/53DAP	0.98362
57DAP/55DAP	0.82611	0.568
62DAP/57DAP	0.98389	0.994
68DAP/62DAP	1.11388	0.866
68DAP/14DAP	1.04282	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.75474	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.89506	0.478
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.02058	1
Mature Eggplant/Ripe Tomato	0.04428	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.63984
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	0.80314
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.81745
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	1.0771
4-3/M82	1.22697	1
5-3/M82	1.16318	1
6-2/M82	N/A	N/A
6-3/M82	0.87975
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.80732	1
IL7-3/WTpooled	0.49943
IL12-4/WTpooled	1.01641	1
IL1-4/WTpooled	0.85867	0.562
WT/WTpooled	1.01217	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	1.04262	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.81714	1
DC3000/delta hrp 6h	0.56503
DC3000/delta hrp 12h	1.17268	1
DC3000/delta hrp 24h	0.77575	0.395

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	N/A	N/A
Exp 36h	N/A	N/A
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	1.15778	1
Var 0h	0.52601	0.206
Var 12h I row2-row1	0.81186	0.473
Var 12h NI row2-row1	1.24999	1
Var 36h I row2-row1	1.22099	1
Var 36h NI row2-row1	0.65765	0.852
Var 60h I row2-row1	1.10019	1
Var 60h NI row2-row1	1.04712	1
Time course 0hI-0hNI	1.15744	0.799
Time course 12hI-12hNI	1.01186	0.892
Time course 36hI-36hNI	1.02644	0.89
Time course 60hI-60hNI	3.1482	0.069

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)	0.64101	0.301
transgenic ySAMdc/azygous control (breaker)	0.65728	0.173
transgenic ySAMdc/azygous control (red)	1.06935	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01658	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9321	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.78122	0.424