Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.17.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07159	0.977
27DAP/17DAP	0.6281	0.123
39DAP/27DAP	1.00184	0.857
41DAP/39DAP	0.72242	0.17
42DAP/41DAP	1.09036	0.937
43DAP/42DAP	0.96589	0.909
47DAP/43DAP	1.15298	0.576
52DAP/47DAP	1.08338	0.941
57DAP/52DAP	0.84676	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10462	0.441
17DAP/reference	0.91956	0.393
27DAP/reference	0.88461	0.078
39DAP/reference	0.97959	0.762
41DAP/reference	0.96622	0.667
42DAP/reference	1.14654	0.756
43DAP/reference	1.14766	0.617
47DAP/reference	1.12014	0.794
52DAP/reference	1.32377	0.031
57DAP/reference	1.29002	0.195

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.72973	0.036
27DAP/17DAP	0.81832	0.537
39DAP/27DAP	0.89924	0.514
41DAP/39DAP	1.10243	0.641
42DAP/41DAP	0.94348	0.617
43DAP/42DAP	1.0461	0.699
47DAP/43DAP	1.1185	0.848
52DAP/47DAP	0.92826	0.763
57DAP/52DAP	1.85641	0.274
57DAP/7DAP	1.49009	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82826	0.078
17DAP/reference	0.85688	0.108
27DAP/reference	0.90997	0.135
39DAP/reference	0.92074	0.307
41DAP/reference	1.06294	1
42DAP/reference	0.89416	0.222
43DAP/reference	1.0208	0.727
47DAP/reference	1.02772	1
52DAP/reference	0.723	0.019
57DAP/reference	0.77498	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89624	0.17
17DAP/reference	0.93903	0.447
27DAP/reference	0.83494	0.167
39DAP/reference	0.99562	0.621
41DAP/reference	1.2594	0.209
42DAP/reference	1.34026	0.061
43DAP/reference	1.05612	0.885
47DAP/reference	1.26076	0.048
52DAP/reference	1.02503	0.713
57DAP/reference	0.80289	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06591	0.775
17DAP/reference	0.90475	0.358
27DAP/reference	0.86866	0.195
39DAP/reference	0.86587	0.076
41DAP/reference	0.7961	0.107
42DAP/reference	1.02466	0.994
43DAP/reference	1.1413	0.459
47DAP/reference	1.02962	1
52DAP/reference	2.20985	0.284
57DAP/reference	0.82583	0.065

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11468	0.966
26DAP/20DAP	0.97096	1
34DAP/26DAP	1.24547	0.819
51DAP/34DAP	0.66107	0.143
52DAP/51DAP	0.90217	1
53DAP/52DAP	0.86083	0.631
55DAP/53DAP	1.03909	0.908
57DAP/55DAP	1.07055	1
62DAP/57DAP	1.4643	0.515
68DAP/62DAP	1.88991	0.202
68DAP/14DAP	2.6875	0.146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24705	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.29861	0.267
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.13755
Mature Eggplant/Ripe Tomato	0.71628

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12326	0.536
1-1-2/M82	1.38786
12-2/M82	N/A	N/A
12-4/M82	0.97919	1
1-3/M82	N/A	N/A
2-1-1/M82	0.7254
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.22017
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.15631
4-3/M82	1.01498	1
5-3/M82	0.85709	0.642
6-2/M82	N/A	N/A
6-3/M82	0.79915
7-1/M82	0.85474
7-2/M82	0.56938
9-3-2/M82	1.31952	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0064
IL2-6/WTpooled	0.96003	1
IL7-5/WTpooled	0.71733
IL7-3/WTpooled	0.99563	1
IL12-4/WTpooled	0.93566	0.71
IL1-4/WTpooled	1.32326	1
WT/WTpooled	0.87791	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	0.56904	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96024	1
DC3000/delta hrp 6h	0.60575
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.97193	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.54182	0.024
DC3000 delta B/DC3000 delta AB	0.45756	0.02

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	0.95783	1
Var 0h	1.10488	0.98
Var 12h I row2-row1	0.73509	0.39
Var 12h NI row2-row1	1.04435	1
Var 36h I row2-row1	0.80537	0.805
Var 36h NI row2-row1	1.17162	0.482
Var 60h I row2-row1	1.28578	0.448
Var 60h NI row2-row1	1.02313	1
Time course 0hI-0hNI	1.03592	0.852
Time course 12hI-12hNI	0.90974	0.242
Time course 36hI-36hNI	0.80956	0.053
Time course 60hI-60hNI	0.08984	0.005

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)	0.52324	0.324
transgenic ySAMdc/azygous control (breaker)	1.12862	1
transgenic ySAMdc/azygous control (red)	0.7421	1

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	1.69669	0.222

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)	1.74631	0.413