Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05597	0.863
27DAP/17DAP	1.0384	0.89
39DAP/27DAP	1.0388	0.944
41DAP/39DAP	1.19103	0.356
42DAP/41DAP	1.06439	0.962
43DAP/42DAP	0.9602	0.851
47DAP/43DAP	0.89397	0.628
52DAP/47DAP	0.96753	0.856
57DAP/52DAP	0.94753	0.879

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02945	0.611
17DAP/reference	1.00271	0.843
27DAP/reference	1.01905	0.806
39DAP/reference	0.95148	0.254
41DAP/reference	1.05508	0.48
42DAP/reference	1.08046	0.08
43DAP/reference	0.93702	0.143
47DAP/reference	1.08705	0.021
52DAP/reference	1.01966	1
57DAP/reference	0.93322	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00017	1
27DAP/17DAP	1.0128	0.957
39DAP/27DAP	0.933	0.488
41DAP/39DAP	1.0134	0.853
42DAP/41DAP	0.92703	0.552
43DAP/42DAP	1.00658	0.746
47DAP/43DAP	1.00782	0.956
52DAP/47DAP	0.95198	0.66
57DAP/52DAP	0.98824	0.813
57DAP/7DAP	1.00937	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90434	0.088
17DAP/reference	0.93664	0.108
27DAP/reference	0.93369	0.011
39DAP/reference	0.96539	0.064
41DAP/reference	1.01422	0.891
42DAP/reference	0.96446	0.044
43DAP/reference	0.91307	0.064
47DAP/reference	1.00322	1
52DAP/reference	1.02846	0.886
57DAP/reference	0.99857	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02291	0.712
17DAP/reference	1.05108	0.311
27DAP/reference	1.12018	0.446
39DAP/reference	1.02993	0.935
41DAP/reference	1.06568	0.353
42DAP/reference	0.99929	0.723
43DAP/reference	1.10103	0.085
47DAP/reference	1.00413	0.833
52DAP/reference	1.07639	0.156
57DAP/reference	1.04488	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89708	0.098
17DAP/reference	0.96189	0.243
27DAP/reference	0.90926	0.065
39DAP/reference	0.91767	0.01
41DAP/reference	0.95136	0.185
42DAP/reference	0.9451	0.361
43DAP/reference	1.05191	0.679
47DAP/reference	1.0008	0.754
52DAP/reference	0.90161	0.296
57DAP/reference	1.07409	0.385

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01892	0.966
26DAP/20DAP	0.96154	1
34DAP/26DAP	1.03595	0.819
51DAP/34DAP	0.94206	0.66
52DAP/51DAP	0.97123	1
53DAP/52DAP	1.0055	0.978
55DAP/53DAP	0.90215	0.389
57DAP/55DAP	0.94382	0.744
62DAP/57DAP	1.14729	0.678
68DAP/62DAP	0.97519	0.787
68DAP/14DAP	0.93003	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97663	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01892	1
Mature Green Tomato/Ripe Tomato	0.92001	0.165
Immature Eggplant/Mature Eggplant	2.00655	0.05
Ripe Pepper/Ripe Tomato	0.66274	1
Mature Eggplant/Ripe Tomato	1.65544	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15117	0.574
1-1-2/M82	0.97894	1
12-2/M82	0.98272	0.955
12-4/M82	0.92021	0.619
1-3/M82	0.9868
2-1-1/M82	1.15072	0.764
2-1/M82	1.12755	1
2-6/M82	0.9283	1
3-2/M82	0.9567	0.752
4-1-1/M82	1.03566	1
4-1/M82	1.10877	1
4-3-2/M82	0.9447	1
4-3/M82	1.04641	1
5-3/M82	1.04794	0.572
6-2/M82	0.9923	1
6-3/M82	0.95782	1
7-1/M82	0.99963	1
7-2/M82	0.95602	0.881
9-3-2/M82	0.9036	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.52447	0.277
IL2-6/WTpooled	0.84456
IL7-5/WTpooled	1.22669	0.792
IL7-3/WTpooled	1.02676
IL12-4/WTpooled	1.12725	0.839
IL1-4/WTpooled	1.08481	1
WT/WTpooled	0.86712	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	1.02053	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0259	1
DC3000/delta hrp 6h	0.96787	0.95
DC3000/delta hrp 12h	1.09459	1
DC3000/delta hrp 24h	1.06922	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23406	0.042
DC3000 delta B/DC3000 delta AB	1.12023	0.324

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04939	1
Exp 36h	0.96024	0.82
Exp 60h	1.0978	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95999	1
Var 0h	0.95285	1
Var 12h I row2-row1	1.1469	0.235
Var 12h NI row2-row1	0.94267	0.488
Var 36h I row2-row1	0.94332	1
Var 36h NI row2-row1	0.9471	0.549
Var 60h I row2-row1	0.93253	0.582
Var 60h NI row2-row1	1.02603	1
Time course 0hI-0hNI	1.0764	0.833
Time course 12hI-12hNI	0.99912	1
Time course 36hI-36hNI	1.30039	0.089
Time course 60hI-60hNI	2.07688	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)	0.95982	0.33
transgenic ySAMdc/azygous control (breaker)	1.04258	1
transgenic ySAMdc/azygous control (red)	1.03819	0.92

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	0.52592	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02529	0.307
Manapal/WT (break)	0.83188	0.333
Manapal/WT (red)	0.8872	0.315