Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94558	0.664
27DAP/17DAP	0.85386	0.697
39DAP/27DAP	1.15086	0.787
41DAP/39DAP	1.72329	0.597
42DAP/41DAP	1.60762	0.536
43DAP/42DAP	0.95929	0.9
47DAP/43DAP	1.27143	0.689
52DAP/47DAP	0.97858	0.769
57DAP/52DAP	1.1854	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9627	0.465
17DAP/reference	0.96642	0.597
27DAP/reference	0.94946	0.385
39DAP/reference	1.04349	0.534
41DAP/reference	0.7976	0.009
42DAP/reference	0.80725	0.011
43DAP/reference	0.88322	0.247
47DAP/reference	0.89507	0.065
52DAP/reference	0.95599	0.371
57DAP/reference	1.09316	0.249

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14265	0.87
27DAP/17DAP	0.97617	0.887
39DAP/27DAP	1.00774	0.919
41DAP/39DAP	1.02444	0.909
42DAP/41DAP	0.89973	0.572
43DAP/42DAP	1.2819	0.032
47DAP/43DAP	0.96762	0.902
52DAP/47DAP	1.11472	0.804
57DAP/52DAP	1.05193	0.929
57DAP/7DAP	1.14375	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23827	0.078
17DAP/reference	1.10254	0.399
27DAP/reference	1.14922	0.551
39DAP/reference	0.95127	0.354
41DAP/reference	0.98844	0.589
42DAP/reference	0.89998	0.289
43DAP/reference	1.1832	0.087
47DAP/reference	1.02646	0.965
52DAP/reference	0.91277	0.213
57DAP/reference	1.06397	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06214	0.449
17DAP/reference	1.06615	0.892
27DAP/reference	0.9963	0.735
39DAP/reference	0.95814	0.359
41DAP/reference	0.9376	0.34
42DAP/reference	0.94063	0.321
43DAP/reference	0.84124	0.117
47DAP/reference	1.02442	1
52DAP/reference	0.80004	0.017
57DAP/reference	0.8532	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15636	0.086
17DAP/reference	1.07261	0.431
27DAP/reference	1.25061	0.065
39DAP/reference	1.13526	0.169
41DAP/reference	0.94843	0.459
42DAP/reference	1.12618	0.416
43DAP/reference	0.93468	0.398
47DAP/reference	0.79157	0.041
52DAP/reference	0.88187	0.303
57DAP/reference	0.89685	0.089

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.51877	1
26DAP/20DAP	1.03442	1
34DAP/26DAP	1.62308	1
51DAP/34DAP	1.17322	0.143
52DAP/51DAP	1.10528	0.651
53DAP/52DAP	0.57984	0.198
55DAP/53DAP	1.14595	0.927
57DAP/55DAP	1.18365	0.643
62DAP/57DAP	1.06092	1
68DAP/62DAP	1.09516	0.962
68DAP/14DAP	1.01216	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77332	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.31032
Immature Eggplant/Mature Eggplant	1.67471
Ripe Pepper/Ripe Tomato	1.19472
Mature Eggplant/Ripe Tomato	2.26195

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.15534	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17233	1
IL12-4/WTpooled	0.8839	0.71
IL1-4/WTpooled	1.1583	1
WT/WTpooled	0.87542	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	0.84278	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18473	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.0366	1
DC3000/delta hrp 24h	0.90259	0.682

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	0.63623	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0244	1
Var 0h	1.01348	0.936
Var 12h I row2-row1	0.79034	0.357
Var 12h NI row2-row1	0.97526	0.906
Var 36h I row2-row1	0.79015	0.805
Var 36h NI row2-row1	1.22889	1
Var 60h I row2-row1	1.02898	0.448
Var 60h NI row2-row1	0.96768	1
Time course 0hI-0hNI	1.00249	1
Time course 12hI-12hNI	0.98178	0.897
Time course 36hI-36hNI	0.79674	0.048
Time course 60hI-60hNI	0.29956	0.006

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)	0.95443	0.3
transgenic ySAMdc/azygous control (breaker)	1.36995	0.178
transgenic ySAMdc/azygous control (red)	0.97165	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9139	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39997	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05833	1
Manapal/WT (break)	1.10553	1
Manapal/WT (red)	1.20469	0.222