Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.4.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.078	0.798
27DAP/17DAP	0.88242	0.72
39DAP/27DAP	0.89672	0.583
41DAP/39DAP	0.92983	0.655
42DAP/41DAP	0.85359	1
43DAP/42DAP	0.84591	0.483
47DAP/43DAP	0.75974	0.304
52DAP/47DAP	1.04293	0.908
57DAP/52DAP	1.04328	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95466	0.422
17DAP/reference	1.19639	0.013
27DAP/reference	1.29221	0.121
39DAP/reference	1.10655	0.691
41DAP/reference	1.0795	0.587
42DAP/reference	0.98959	0.547
43DAP/reference	0.79419	0.429
47DAP/reference	1.42558	0.84
52DAP/reference	1.0071	0.689
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2776	0.042
27DAP/17DAP	0.96341	0.854
39DAP/27DAP	0.97682	0.852
41DAP/39DAP	1.01079	1
42DAP/41DAP	0.92388	0.579
43DAP/42DAP	0.90613	0.399
47DAP/43DAP	0.93286	0.696
52DAP/47DAP	1.12432	0.619
57DAP/52DAP	1.10163	0.547
57DAP/7DAP	1.26083	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.81709	0.025
17DAP/reference	2.19995	0.007
27DAP/reference	1.44181	0.018
39DAP/reference	1.17907	0.048
41DAP/reference	1.62147	0.016
42DAP/reference	1.69717	0.011
43DAP/reference	1.45045	0.006
47DAP/reference	1.14332	0.214
52DAP/reference	1.32704	0.058
57DAP/reference	1.15612	0.198

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19969	0.577
17DAP/reference	1.06025	0.543
27DAP/reference	0.99041	0.576
39DAP/reference	1.1306	0.529
41DAP/reference	0.97786	0.481
42DAP/reference	1.06676	0.359
43DAP/reference	1.06065	0.713
47DAP/reference	1.13746	0.212
52DAP/reference	0.94492	0.38
57DAP/reference	0.9265	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.08722	0.021
17DAP/reference	1.44865	0.311
27DAP/reference	1.51341	0.027
39DAP/reference	1.51287	0.011
41DAP/reference	1.1627	0.015
42DAP/reference	1.12007	0.321
43DAP/reference	1.18584	0.134
47DAP/reference	0.9344	0.348
52DAP/reference	1.0488	0.683
57DAP/reference	1.15728	0.209

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15105	0.945
26DAP/20DAP	1.26974	0.785
34DAP/26DAP	0.99682	0.972
51DAP/34DAP	1.41804	0.524
52DAP/51DAP	0.9211	1
53DAP/52DAP	0.9854	0.929
55DAP/53DAP	1.18618	0.645
57DAP/55DAP	0.97545	0.891
62DAP/57DAP	20.5852
68DAP/62DAP	1.21328	0.827
68DAP/14DAP	0.88763	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29844	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.84706	0.336
Mature Green Tomato/Ripe Tomato	23.1494	0.185
Immature Eggplant/Mature Eggplant	0.77392	0.125
Ripe Pepper/Ripe Tomato	1.59101
Mature Eggplant/Ripe Tomato	1.5741	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06629	1
1-1-2/M82	0.959	1
12-2/M82	0.93431
12-4/M82	1.03651	1
1-3/M82	0.57563
2-1-1/M82	0.94355
2-1/M82	0.81381
2-6/M82	0.99696	1
3-2/M82	1.34032	0.463
4-1-1/M82	0.82337
4-1/M82	1.13774	0.853
4-3-2/M82	1.05942	1
4-3/M82	1.10213	1
5-3/M82	0.86979	0.49
6-2/M82	N/A	N/A
6-3/M82	0.85319
7-1/M82	1.07605	0.598
7-2/M82	1.00683	1
9-3-2/M82	1.0961

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00384	1
IL2-6/WTpooled	1.1052	0.659
IL7-5/WTpooled	0.82106	1
IL7-3/WTpooled	0.96555	1
IL12-4/WTpooled	0.97627	1
IL1-4/WTpooled	0.89596	0.457
WT/WTpooled	1.02576	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	0.80505	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07173	0.75
DC3000/delta hrp 6h	0.78663	0.95
DC3000/delta hrp 12h	1.0253	1
DC3000/delta hrp 24h	1.0717	0.633

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	0.582

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99251	1
Exp 36h	0.93112	0.749
Exp 60h	0.96963	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04119	1
Var 0h	1.0357	1
Var 12h I row2-row1	0.83959	0.514
Var 12h NI row2-row1	1.22368	1
Var 36h I row2-row1	0.84821	0.575
Var 36h NI row2-row1	0.91356	0.645
Var 60h I row2-row1	1.20617	0.562
Var 60h NI row2-row1	1.0353	1
Time course 0hI-0hNI	0.9883	0.97
Time course 12hI-12hNI	1.03063	0.82
Time course 36hI-36hNI	0.85854	0.081
Time course 60hI-60hNI	0.52473	0.011

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)	0.94692	0.362
transgenic ySAMdc/azygous control (breaker)	1.20103	1
transgenic ySAMdc/azygous control (red)	1.0561	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01896	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09472	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81703	1
Manapal/WT (break)	0.89015	1
Manapal/WT (red)	0.77107	0.181