Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.17.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13684	0.798
27DAP/17DAP	1.27254	0.761
39DAP/27DAP	1.14561	0.981
41DAP/39DAP	1.02311	0.89
42DAP/41DAP	1.1454	0.898
43DAP/42DAP	1.14169	0.892
47DAP/43DAP	1.11063	0.647
52DAP/47DAP	0.89444	0.682
57DAP/52DAP	1.10366	0.859

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56365	0.23
17DAP/reference	1.11845	0.318
27DAP/reference	1.10201	0.648
39DAP/reference	1.25409	0.061
41DAP/reference	1.35279	0.018
42DAP/reference	1.2667	0.011
43DAP/reference	1.03885	0.957
47DAP/reference	1.2829	0.025
52DAP/reference	1.28591	0.065
57DAP/reference	1.00687	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99224	0.801
27DAP/17DAP	1.06644	0.826
39DAP/27DAP	0.99982	1
41DAP/39DAP	1.03769	0.88
42DAP/41DAP	0.88284	0.102
43DAP/42DAP	1.04708	0.746
47DAP/43DAP	1.00402	0.973
52DAP/47DAP	1.13784	0.517
57DAP/52DAP	1.21526	0.211
57DAP/7DAP	1.12287	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89073	0.27
17DAP/reference	0.99538	0.599
27DAP/reference	0.93987	0.303
39DAP/reference	1.44054	0.01
41DAP/reference	0.98079	0.512
42DAP/reference	1.29386	0.233
43DAP/reference	1.06856	0.273
47DAP/reference	1.15727	0.337
52DAP/reference	0.93019	0.278
57DAP/reference	0.69021	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95155	0.706
17DAP/reference	1.17158	0.448
27DAP/reference	1.02409	1
39DAP/reference	1.34995	0.239
41DAP/reference	0.97134	0.459
42DAP/reference	1.12179	0.24
43DAP/reference	1.02273	1
47DAP/reference	1.22405	0.059
52DAP/reference	1.09024	0.528
57DAP/reference	1.22971	0.437

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.60237	0.028
17DAP/reference	1.05511	1
27DAP/reference	1.15685	0.028
39DAP/reference	1.18241	0.12
41DAP/reference	1.36577	0.008
42DAP/reference	1.51899	0.025
43DAP/reference	1.25924	0.202
47DAP/reference	1.20198	0.171
52DAP/reference	1.15476	0.534
57DAP/reference	1.15454	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96784	1
26DAP/20DAP	0.83548	0.317
34DAP/26DAP	0.94998	0.917
51DAP/34DAP	0.85413	0.419
52DAP/51DAP	1.13542	0.534
53DAP/52DAP	1.07215	0.47
55DAP/53DAP	1.00574	1
57DAP/55DAP	1.04353	0.745
62DAP/57DAP	1.07518	1
68DAP/62DAP	0.79556	0.505
68DAP/14DAP	0.63305	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.36009	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	7.76138
Mature Green Tomato/Ripe Tomato	0.63788	0.033
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.07528
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.39177
12-2/M82	N/A	N/A
12-4/M82	0.95934
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	0.70006
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.97346

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.93112	1
IL7-5/WTpooled	0.76181
IL7-3/WTpooled	0.89911	1
IL12-4/WTpooled	1.014	1
IL1-4/WTpooled	1.05243	1
WT/WTpooled	1.07719	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	0.82758	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.94471	1
DC3000/delta hrp 24h	1.37138	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32501	0.06
DC3000 delta B/DC3000 delta AB	1.23232	0.302

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	1.00097	1
Var 0h	1.18332	0.782
Var 12h I row2-row1	1.27689	0.544
Var 12h NI row2-row1	0.91154	0.488
Var 36h I row2-row1	0.96397	1
Var 36h NI row2-row1	1.04826	1
Var 60h I row2-row1	1.04545	1
Var 60h NI row2-row1	0.94681	0.977
Time course 0hI-0hNI	1.05385	0.719
Time course 12hI-12hNI	0.95925	0.675
Time course 36hI-36hNI	0.91208	0.194
Time course 60hI-60hNI	0.77742	0.009

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)	0.66667	0.301
transgenic ySAMdc/azygous control (breaker)	0.93806	1
transgenic ySAMdc/azygous control (red)	1.07823	0.92

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	1.1417	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85285	1
Manapal/WT (break)	0.82693	1
Manapal/WT (red)	1.11752	1