Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39236	0.463
27DAP/17DAP	1.21671	0.849
39DAP/27DAP	1.10461	0.857
41DAP/39DAP	1.449	0.145
42DAP/41DAP	1.27813	0.485
43DAP/42DAP	0.88548	0.773
47DAP/43DAP	1.03332	0.92
52DAP/47DAP	1.16118	0.898
57DAP/52DAP	0.94582	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02189	0.994
17DAP/reference	0.92967	0.342
27DAP/reference	0.96616	0.61
39DAP/reference	0.87206	0.049
41DAP/reference	0.93394	0.341
42DAP/reference	1.02387	1
43DAP/reference	0.98184	0.745
47DAP/reference	0.99136	0.568
52DAP/reference	1.12015	0.056
57DAP/reference	1.00697	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80686	0.595
27DAP/17DAP	1.1232	0.73
39DAP/27DAP	0.83566	0.344
41DAP/39DAP	0.48785	0.412
42DAP/41DAP	0.9076	0.52
43DAP/42DAP	0.85928	0.576
47DAP/43DAP	0.92759	0.87
52DAP/47DAP	0.93449	0.893
57DAP/52DAP	1.42854	0.135
57DAP/7DAP	3.04836	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25212	0.166
17DAP/reference	1.7816	0.007
27DAP/reference	1.9529	0.007
39DAP/reference	1.60043	0.013
41DAP/reference	1.56305	0.02
42DAP/reference	1.90362	0.006
43DAP/reference	1.6047	0.011
47DAP/reference	1.15929	0.549
52DAP/reference	1.45311	0.009
57DAP/reference	1.50498	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05689	0.852
17DAP/reference	1.05664	0.773
27DAP/reference	1.26645	0.126
39DAP/reference	1.04591	1
41DAP/reference	1.23311	0.157
42DAP/reference	1.02759	0.723
43DAP/reference	0.99444	0.736
47DAP/reference	0.91081	0.168
52DAP/reference	1.20813	0.069
57DAP/reference	1.05571	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34412	0.07
17DAP/reference	1.32662	0.522
27DAP/reference	2.28481	0.025
39DAP/reference	2.00683	0.018
41DAP/reference	1.44092	0.027
42DAP/reference	1.54393	0.018
43DAP/reference	1.32101	0.175
47DAP/reference	0.91368	0.278
52DAP/reference	1.87226	0.116
57DAP/reference	1.48561	0.081

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.6141	0.207
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.87676	0.816
51DAP/34DAP	1.23301	0.339
52DAP/51DAP	2.34711	0.783
53DAP/52DAP	1.05577	1
55DAP/53DAP	1.29814
57DAP/55DAP	0.79188	0.356
62DAP/57DAP	1.15014	0.029
68DAP/62DAP	1.16987	0.565
68DAP/14DAP	0.91303	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9409	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.42959	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0974
1-1-2/M82	1.13999	1
12-2/M82	0.63223	0.955
12-4/M82	0.8353
1-3/M82	0.53098
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.06025
3-2/M82	0.83049
4-1-1/M82	1.47009
4-1/M82	1.31154
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91327	1
6-2/M82	N/A	N/A
6-3/M82	0.61903
7-1/M82	N/A	N/A
7-2/M82	0.87141
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.38297	0.277
IL2-6/WTpooled	0.54415	0.383
IL7-5/WTpooled	1.22731	0.792
IL7-3/WTpooled	1.36999	1
IL12-4/WTpooled	1.22446	0.538
IL1-4/WTpooled	0.92508	0.834
WT/WTpooled	0.9952	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9991	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.04115	1
DC3000/delta hrp 24h	1.29681	0.483

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	1.28765
Var 0h	0.95774	1
Var 12h I row2-row1	0.96869	0.856
Var 12h NI row2-row1	1.18469
Var 36h I row2-row1	0.46214
Var 36h NI row2-row1	2.79985
Var 60h I row2-row1	0.89845	0.285
Var 60h NI row2-row1	0.81599	0.977
Time course 0hI-0hNI	1.77962	0.603
Time course 12hI-12hNI	1.00259	0.888
Time course 36hI-36hNI	0.79923	0.171
Time course 60hI-60hNI	1.21258	0.025

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)	1.37764	0.482
transgenic ySAMdc/azygous control (breaker)	1.29361	0.172
transgenic ySAMdc/azygous control (red)	1.07273	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92285	0.062

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65442	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35585	0.093
Manapal/WT (break)	1.07066	1
Manapal/WT (red)	1.12222	1