Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12441	0.602
27DAP/17DAP	0.88455	0.746
39DAP/27DAP	0.98424	0.769
41DAP/39DAP	1.4282	0.392
42DAP/41DAP	1.00058	1
43DAP/42DAP	0.88162	0.807
47DAP/43DAP	0.85731	0.55
52DAP/47DAP	1.22861	0.541
57DAP/52DAP	1.12988	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98543	0.55
17DAP/reference	1.03155	0.21
27DAP/reference	0.97639	0.552
39DAP/reference	0.93626	0.292
41DAP/reference	0.97868	0.667
42DAP/reference	0.98355	0.384
43DAP/reference	1.00403	0.982
47DAP/reference	0.93148	0.038
52DAP/reference	0.83547	0.062
57DAP/reference	0.94412	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97315	0.629
27DAP/17DAP	0.99439	0.887
39DAP/27DAP	1.04273	0.596
41DAP/39DAP	1.08412	0.371
42DAP/41DAP	0.93661	0.37
43DAP/42DAP	0.96382	0.189
47DAP/43DAP	0.99434	0.983
52DAP/47DAP	1.02175	0.915
57DAP/52DAP	1.01201	0.984
57DAP/7DAP	1.09215	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95736	0.445
17DAP/reference	1.03608	0.525
27DAP/reference	1.06235	0.049
39DAP/reference	1.01182	0.634
41DAP/reference	0.99829	0.811
42DAP/reference	0.96595	0.211
43DAP/reference	1.02483	0.746
47DAP/reference	1.02981	0.915
52DAP/reference	1.07981	0.007
57DAP/reference	1.08589	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96167	0.503
17DAP/reference	0.97125	0.41
27DAP/reference	0.86912	0.1
39DAP/reference	0.90649	0.159
41DAP/reference	0.87277	0.064
42DAP/reference	0.96461	0.355
43DAP/reference	1.02803	0.735
47DAP/reference	1.00848	0.816
52DAP/reference	0.92753	0.047
57DAP/reference	1.00388	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97486	0.158
17DAP/reference	0.9874	0.624
27DAP/reference	1.03204	0.531
39DAP/reference	0.95976	0.199
41DAP/reference	0.95258	0.56
42DAP/reference	0.8456	0.287
43DAP/reference	0.92509	0.432
47DAP/reference	0.93142	0.269
52DAP/reference	0.96611	0.69
57DAP/reference	0.79399	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04107	0.966
26DAP/20DAP	0.95787	0.317
34DAP/26DAP	1.03697	1
51DAP/34DAP	0.92542	0.428
52DAP/51DAP	1.00834	0.888
53DAP/52DAP	0.99795	1
55DAP/53DAP	0.97158	0.735
57DAP/55DAP	1.02543	0.961
62DAP/57DAP	0.92575	0.681
68DAP/62DAP	1.09632	1
68DAP/14DAP	0.93841	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00153	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.90383	0.611
Immature Eggplant/Mature Eggplant	1.07792	1
Ripe Pepper/Ripe Tomato	0.41463
Mature Eggplant/Ripe Tomato	1.03042	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03452	1
1-1-2/M82	0.94814	1
12-2/M82	1.16048
12-4/M82	0.925	1
1-3/M82	0.98182	1
2-1-1/M82	1.02547
2-1/M82	N/A	N/A
2-6/M82	0.93607	1
3-2/M82	1.03826	0.426
4-1-1/M82	0.96024	1
4-1/M82	0.76247	0.737
4-3-2/M82	0.93463	1
4-3/M82	1.00554	1
5-3/M82	1.11762	1
6-2/M82	0.9877	1
6-3/M82	1.0168	1
7-1/M82	1.01445	1
7-2/M82	1.07784	0.385
9-3-2/M82	0.83649	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99132	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.82226	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.7932	0.581
IL1-4/WTpooled	0.975	1
WT/WTpooled	0.99435	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	1.26772	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00829	1
DC3000/delta hrp 6h	1.06191	1
DC3000/delta hrp 12h	0.99139	1
DC3000/delta hrp 24h	1.01751	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01236	0.556
DC3000 delta B/DC3000 delta AB	1.0474	0.579

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17081	1
Exp 36h	1.62981	1
Exp 60h	1.89285	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98023	1
Var 0h	1.1122	0.782
Var 12h I row2-row1	1.01428	0.795
Var 12h NI row2-row1	0.98828	0.82
Var 36h I row2-row1	0.95672	1
Var 36h NI row2-row1	0.86837	0.549
Var 60h I row2-row1	1.08278	0.562
Var 60h NI row2-row1	0.97924	1
Time course 0hI-0hNI	1.08551	0.719
Time course 12hI-12hNI	1.0474	0.668
Time course 36hI-36hNI	1.45268	0.007
Time course 60hI-60hNI	1.53368	0.013

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)	1.29944	0.455
transgenic ySAMdc/azygous control (breaker)	0.93504	1
transgenic ySAMdc/azygous control (red)	1.30925	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99766	0.784

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.16165	0.238

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)	0.6209	0.36