Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.3.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31991	0.428
27DAP/17DAP	0.94265	0.908
39DAP/27DAP	1.41727	0.497
41DAP/39DAP	1.01537	0.978
42DAP/41DAP	1.09426	0.825
43DAP/42DAP	0.97479	0.918
47DAP/43DAP	1.25872	0.502
52DAP/47DAP	0.87777	0.618
57DAP/52DAP	1.0828	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02174	1
17DAP/reference	0.93578	0.448
27DAP/reference	0.90693	0.339
39DAP/reference	0.95587	0.638
41DAP/reference	0.9006	0.267
42DAP/reference	0.82051	0.02
43DAP/reference	0.47594	0.302
47DAP/reference	1.05425	1
52DAP/reference	1.1909	0.695
57DAP/reference	0.76783

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06941	0.708
27DAP/17DAP	0.92682	0.782
39DAP/27DAP	1.16952	0.267
41DAP/39DAP	0.92195	0.617
42DAP/41DAP	1.13548	0.539
43DAP/42DAP	0.87488	0.051
47DAP/43DAP	1.18168	0.713
52DAP/47DAP	0.99954	0.987
57DAP/52DAP	1.11227	0.497
57DAP/7DAP	0.87295	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08267	0.351
17DAP/reference	1.24448	0.045
27DAP/reference	1.23022	0.015
39DAP/reference	1.27861	0.01
41DAP/reference	1.60744	0.015
42DAP/reference	1.30737	0.018
43DAP/reference	1.17131	0.118
47DAP/reference	1.12638	0.214
52DAP/reference	1.3606	0.016
57DAP/reference	1.30029	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02094	0.874
17DAP/reference	1.00499	0.805
27DAP/reference	1.01772	1
39DAP/reference	1.00194	1
41DAP/reference	1.06735	0.491
42DAP/reference	1.34265	0.041
43DAP/reference	1.27234	0.064
47DAP/reference	1.31128	0.008
52DAP/reference	1.0864	0.279
57DAP/reference	0.88519	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94821	0.335
17DAP/reference	0.99274	0.778
27DAP/reference	1.22821	0.025
39DAP/reference	1.15536	0.14
41DAP/reference	1.15054	0.086
42DAP/reference	1.14853	0.121
43DAP/reference	1.0383	0.679
47DAP/reference	1.09848	0.147
52DAP/reference	1.50135	0.289
57DAP/reference	1.21809	0.147

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9284	1
26DAP/20DAP	1.07631	1
34DAP/26DAP	0.72997	0.387
51DAP/34DAP	0.86905	0.472
52DAP/51DAP	0.9885	1
53DAP/52DAP	0.80259	0.316
55DAP/53DAP	1.12115	0.876
57DAP/55DAP	1.35681	0.898
62DAP/57DAP	0.93815
68DAP/62DAP	1.2077	0.178
68DAP/14DAP	1.15912

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75493	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78547	0.261
Mature Green Tomato/Ripe Tomato	1.25076	0.523
Immature Eggplant/Mature Eggplant	2.14582	0.05
Ripe Pepper/Ripe Tomato	0.81139	0.293
Mature Eggplant/Ripe Tomato	0.71887	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00271	1
1-1-2/M82	1.11811	1
12-2/M82	1.05191
12-4/M82	0.96186	1
1-3/M82	1.4921	0.277
2-1-1/M82	0.77211	0.565
2-1/M82	N/A	N/A
2-6/M82	0.88305	1
3-2/M82	1.02417
4-1-1/M82	0.86453	1
4-1/M82	1.44981	0.853
4-3-2/M82	1.14823
4-3/M82	1.27132	1
5-3/M82	1.16364	0.572
6-2/M82	N/A	N/A
6-3/M82	1.03401	1
7-1/M82	0.96851	1
7-2/M82	0.99996
9-3-2/M82	1.14417	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.89119
IL7-3/WTpooled	1.10176	0.362
IL12-4/WTpooled	0.86095	1
IL1-4/WTpooled	1.04686	1
WT/WTpooled	0.98117	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	1.07659	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14451	0.921
DC3000/delta hrp 6h	1.44031	1
DC3000/delta hrp 12h	0.93561	1
DC3000/delta hrp 24h	0.96855	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	5.38355
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	1.1068	1
Exp 36h	1.13319	1
Exp 60h	1.13395	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.89413
Var 0h	1.01932	1
Var 12h I row2-row1	0.40328
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.84655	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.82783	0.132
Time course 12hI-12hNI	0.96437	0.897
Time course 36hI-36hNI	0.98181	0.621
Time course 60hI-60hNI	0.9721	1

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)	1.11692	0.321
transgenic ySAMdc/azygous control (breaker)	0.823	0.142
transgenic ySAMdc/azygous control (red)	0.95411	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0275	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75811	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.016	1
Manapal/WT (break)	1.05675	1
Manapal/WT (red)	0.74586	0.181