Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96192	0.743
27DAP/17DAP	0.89362	0.754
39DAP/27DAP	0.9445	0.608
41DAP/39DAP	1.11601	0.728
42DAP/41DAP	0.91858	1
43DAP/42DAP	0.85229	0.554
47DAP/43DAP	0.93744	0.768
52DAP/47DAP	1.01742	1
57DAP/52DAP	1.02369	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91464	0.121
17DAP/reference	0.96181	0.321
27DAP/reference	0.94606	0.304
39DAP/reference	0.92239	0.036
41DAP/reference	0.9502	0.154
42DAP/reference	0.96984	0.134
43DAP/reference	0.95791	0.247
47DAP/reference	1.0176	0.963
52DAP/reference	0.97814	0.489
57DAP/reference	0.93926	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99004	0.826
27DAP/17DAP	0.99937
39DAP/27DAP	0.98162	0.784
41DAP/39DAP	0.92656	0.885
42DAP/41DAP	1.01484	1
43DAP/42DAP	0.92413	0.503
47DAP/43DAP	0.99904	1
52DAP/47DAP	0.95958	0.913
57DAP/52DAP	0.89607	0.391
57DAP/7DAP	0.95295	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87494	0.082
17DAP/reference	0.85157	0.011
27DAP/reference	0.84859	0.01
39DAP/reference	0.87762	0.011
41DAP/reference	0.84357	0.036
42DAP/reference	0.80432	0.012
43DAP/reference	0.81537	0.032
47DAP/reference	0.93343	0.504
52DAP/reference	0.78104	0.046
57DAP/reference	0.81716	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0528	0.343
17DAP/reference	0.89409	0.041
27DAP/reference	0.99766	0.735
39DAP/reference	0.90051	0.129
41DAP/reference	0.93258	0.133
42DAP/reference	0.92282	0.037
43DAP/reference	1.09981	0.272
47DAP/reference	0.93921	0.055
52DAP/reference	1.07334	0.057
57DAP/reference	1.1426	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8964	0.048
17DAP/reference	0.98926	0.709
27DAP/reference	0.94886	0.218
39DAP/reference	0.94936	0.092
41DAP/reference	0.95331	0.209
42DAP/reference	0.90639	0.023
43DAP/reference	0.89364	0.039
47DAP/reference	0.97776	0.452
52DAP/reference	0.91211	0.31
57DAP/reference	0.77245	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8822	0.981
26DAP/20DAP	0.98896	1
34DAP/26DAP	0.9268	0.693
51DAP/34DAP	1.08958	0.581
52DAP/51DAP	1.09852	0.15
53DAP/52DAP	1.22108
55DAP/53DAP	1.36655
57DAP/55DAP	1.57534	0.745
62DAP/57DAP	0.97481	0.994
68DAP/62DAP	0.95301	0.7
68DAP/14DAP	1.03565	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03541	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99308	0.826
Mature Green Tomato/Ripe Tomato	0.96418	0.611
Immature Eggplant/Mature Eggplant	0.9273	0.366
Ripe Pepper/Ripe Tomato	1.0141	1
Mature Eggplant/Ripe Tomato	0.94719	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00328	1
1-1-2/M82	0.90166	1
12-2/M82	N/A	N/A
12-4/M82	1.04081	0.611
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	0.95951
3-2/M82	0.98956	1
4-1-1/M82	1.09611
4-1/M82	1.12758	1
4-3-2/M82	0.8614	0.487
4-3/M82	0.96044	1
5-3/M82	1.03384	1
6-2/M82	N/A	N/A
6-3/M82	0.99569
7-1/M82	0.94816
7-2/M82	1.01178	1
9-3-2/M82	1.09404

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66614	0.247
IL2-6/WTpooled	1.03778	0.788
IL7-5/WTpooled	0.95075	1
IL7-3/WTpooled	0.60655	0.31
IL12-4/WTpooled	0.87046	0.71
IL1-4/WTpooled	0.72257	0.402
WT/WTpooled	1.00474	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	0.75056	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85316	0.807
DC3000/delta hrp 6h	1.05986	1
DC3000/delta hrp 12h	1.04514	1
DC3000/delta hrp 24h	1.17552	0.356

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13872
DC3000 delta B/DC3000 delta AB	1.09604	0.368

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8355	1
Exp 36h	1.06646	1
Exp 60h	1.05893	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98448	1
Var 0h	0.87254	1
Var 12h I row2-row1	1.1049	0.211
Var 12h NI row2-row1	1.13641	1
Var 36h I row2-row1	1.09779	1
Var 36h NI row2-row1	0.88792	0.584
Var 60h I row2-row1	1.09898	1
Var 60h NI row2-row1	1.47614	0.904
Time course 0hI-0hNI	1.02847	0.867
Time course 12hI-12hNI	0.97535	0.858
Time course 36hI-36hNI	0.78587	0.031
Time course 60hI-60hNI	0.72063	0.008

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)	1.16996	0.278
transgenic ySAMdc/azygous control (breaker)	0.84884	0.49
transgenic ySAMdc/azygous control (red)	1.03494	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98314	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92069	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03349	1
Manapal/WT (break)	1.30981	0.183
Manapal/WT (red)	1.10197	0.164