Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19424	0.394
27DAP/17DAP	1.2553	0.742
39DAP/27DAP	0.90634	0.583
41DAP/39DAP	1.52176	0.321
42DAP/41DAP	1.11729	0.931
43DAP/42DAP	0.94576	0.867
47DAP/43DAP	1.10432	0.715
52DAP/47DAP	0.89119	0.682
57DAP/52DAP	0.92115	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02749	0.611
17DAP/reference	1.03382	0.442
27DAP/reference	0.99487	0.797
39DAP/reference	1.03264	0.593
41DAP/reference	1.02699	0.516
42DAP/reference	1.0732	0.011
43DAP/reference	0.96842	0.555
47DAP/reference	1.06209	0.11
52DAP/reference	0.94829	0.237
57DAP/reference	1.03796	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98698	0.763
27DAP/17DAP	0.97237	0.887
39DAP/27DAP	1.00084	1
41DAP/39DAP	1.0596	0.817
42DAP/41DAP	0.96308	0.721
43DAP/42DAP	1.05312	0.273
47DAP/43DAP	0.99105	0.971
52DAP/47DAP	0.95191	0.77
57DAP/52DAP	0.98468	0.798
57DAP/7DAP	0.92653	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94335	0.091
17DAP/reference	0.96014	0.031
27DAP/reference	0.93871	0.016
39DAP/reference	1.00436	1
41DAP/reference	1.00829	1
42DAP/reference	0.96928	0.111
43DAP/reference	0.97291	0.22
47DAP/reference	0.93973	0.168
52DAP/reference	0.99642	0.679
57DAP/reference	0.96359	0.223

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02919	0.794
17DAP/reference	1.02278	0.338
27DAP/reference	0.93231	0.134
39DAP/reference	0.97938	0.455
41DAP/reference	0.97735	0.393
42DAP/reference	0.97495	0.534
43DAP/reference	1.0409	0.647
47DAP/reference	1.02678	0.413
52DAP/reference	1.05085	0.194
57DAP/reference	1.08926	0.127

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00603	0.804
17DAP/reference	1.02818	0.767
27DAP/reference	0.95944	0.062
39DAP/reference	0.94791	0.028
41DAP/reference	0.96525	0.086
42DAP/reference	0.92569	0.036
43DAP/reference	0.94507	0.237
47DAP/reference	0.99981	0.754
52DAP/reference	0.93117	0.303
57DAP/reference	0.90473	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0051	0.966
26DAP/20DAP	0.96234	1
34DAP/26DAP	0.99711	1
51DAP/34DAP	1.0192	0.909
52DAP/51DAP	1.05206	0.542
53DAP/52DAP	1.04255	0.783
55DAP/53DAP	1.04364	0.741
57DAP/55DAP	0.9072	0.59
62DAP/57DAP	0.92925	0.466
68DAP/62DAP	1.01371	0.939
68DAP/14DAP	0.90996	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94428	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78381	0.257
Mature Green Tomato/Ripe Tomato	1.01026	0.774
Immature Eggplant/Mature Eggplant	1.0298	0.58
Ripe Pepper/Ripe Tomato	2.38996	0.258
Mature Eggplant/Ripe Tomato	2.33359	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02639	1
1-1-2/M82	0.8194
12-2/M82	0.88489
12-4/M82	0.97933	1
1-3/M82	0.79911	0.441
2-1-1/M82	N/A	N/A
2-1/M82	1.30014
2-6/M82	1.08848	0.505
3-2/M82	0.7655
4-1-1/M82	0.99991	1
4-1/M82	0.69463
4-3-2/M82	0.65851	0.487
4-3/M82	0.91723	1
5-3/M82	0.94938	1
6-2/M82	N/A	N/A
6-3/M82	0.94124
7-1/M82	0.87018
7-2/M82	0.92677	0.599
9-3-2/M82	0.90921	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01735	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11624	1
IL12-4/WTpooled	1.06933	0.624
IL1-4/WTpooled	0.89661
WT/WTpooled	1.1227	0.818

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	1.33494	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96644	1
DC3000/delta hrp 6h	1.00272	0.95
DC3000/delta hrp 12h	0.97494	1
DC3000/delta hrp 24h	0.96218	0.794

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08214	0.29
DC3000 delta B/DC3000 delta AB	0.99018	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95363	1
Exp 36h	1.45581	0.409
Exp 60h	1.10935	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99124	1
Var 0h	0.91363	1
Var 12h I row2-row1	1.11544	0.196
Var 12h NI row2-row1	0.89701	0.488
Var 36h I row2-row1	1.02029	1
Var 36h NI row2-row1	0.97698	0.743
Var 60h I row2-row1	1.21996	0.562
Var 60h NI row2-row1	1.12011	0.904
Time course 0hI-0hNI	1.05246	0.852
Time course 12hI-12hNI	1.01803	0.82
Time course 36hI-36hNI	0.94475	0.236
Time course 60hI-60hNI	0.9276	0.161

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)	1.03719	0.654
transgenic ySAMdc/azygous control (breaker)	1.10913	1
transgenic ySAMdc/azygous control (red)	1.1383	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95806	0.168

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5595	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.36279	0.096
Manapal/WT (break)	0.93869	1
Manapal/WT (red)	0.77688	0.199