Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.18.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77447	0.134
27DAP/17DAP	1.14655	0.849
39DAP/27DAP	1.30997	0.453
41DAP/39DAP	0.797	0.283
42DAP/41DAP	1.10539	0.954
43DAP/42DAP	0.78592	0.598
47DAP/43DAP	0.89308	0.64
52DAP/47DAP	1.06887	0.982
57DAP/52DAP	1.24673	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89292	0.073
17DAP/reference	1.12017	0.201
27DAP/reference	0.96285	0.595
39DAP/reference	0.99692	0.957
41DAP/reference	1.02327	0.667
42DAP/reference	0.82063	0.004
43DAP/reference	0.98525	0.763
47DAP/reference	0.86624	0.003
52DAP/reference	0.90772	0.105
57DAP/reference	0.8918	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77022	0.135
27DAP/17DAP	0.98438	0.943
39DAP/27DAP	0.96144	0.712
41DAP/39DAP	1.30918	0.603
42DAP/41DAP	0.93639	0.625
43DAP/42DAP	1.19961	0.324
47DAP/43DAP	0.90893	0.722
52DAP/47DAP	0.91228	0.677
57DAP/52DAP	1.03716	0.907
57DAP/7DAP	0.98873	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07532	0.843
17DAP/reference	1.2679	0.361
27DAP/reference	1.36707	0.073
39DAP/reference	1.16336	0.09
41DAP/reference	1.1451	0.104
42DAP/reference	1.12637	0.534
43DAP/reference	1.44378	0.037
47DAP/reference	1.14918	0.685
52DAP/reference	1.64103	0.012
57DAP/reference	1.66919	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05204	0.842
17DAP/reference	1.0478	0.557
27DAP/reference	0.88013	0.119
39DAP/reference	0.91624	0.265
41DAP/reference	0.88599	0.112
42DAP/reference	0.6579	0.016
43DAP/reference	0.88847	0.277
47DAP/reference	0.88843	0.061
52DAP/reference	0.9182	0.203
57DAP/reference	1.08806	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18106	0.149
17DAP/reference	1.02707	1
27DAP/reference	1.37731	0.03
39DAP/reference	1.60999	0.016
41DAP/reference	1.3558	0.08
42DAP/reference	1.31996	0.416
43DAP/reference	1.23027	0.531
47DAP/reference	0.87537	0.038
52DAP/reference	1.80004	0.176
57DAP/reference	0.91131	0.288

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26711	0.966
26DAP/20DAP	0.87675	0.317
34DAP/26DAP	1.01483	0.98
51DAP/34DAP	0.87236	0.292
52DAP/51DAP	1.32062
53DAP/52DAP	1.15289	0.882
55DAP/53DAP	1.12764	0.614
57DAP/55DAP	0.87249	0.59
62DAP/57DAP	0.90631	0.871
68DAP/62DAP	1.08349	0.936
68DAP/14DAP	0.82127	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.848	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.68909
Mature Green Tomato/Ripe Tomato	1.34743	0.119
Immature Eggplant/Mature Eggplant	1.31696	0.417
Ripe Pepper/Ripe Tomato	1.93546	1
Mature Eggplant/Ripe Tomato	2.01694	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.78419	0.841
1-1-2/M82	1.08363	0.977
12-2/M82	0.8211	0.727
12-4/M82	1.03392	1
1-3/M82	1.81308	0.479
2-1-1/M82	0.80005
2-1/M82	0.74564
2-6/M82	0.99688	1
3-2/M82	0.93766	0.752
4-1-1/M82	1.03213	1
4-1/M82	1.44079	0.466
4-3-2/M82	1.30223	0.508
4-3/M82	1.02898	1
5-3/M82	1.28447	0.572
6-2/M82	1.13199	1
6-3/M82	0.91745	0.857
7-1/M82	1.13784	0.741
7-2/M82	1.19537	1
9-3-2/M82	1.35925	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94985	1
IL2-6/WTpooled	1.09764	0.788
IL7-5/WTpooled	0.92929	1
IL7-3/WTpooled	0.75317	0.298
IL12-4/WTpooled	0.99688	1
IL1-4/WTpooled	0.89997	0.699
WT/WTpooled	0.99216	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	0.87353	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99436	1
DC3000/delta hrp 6h	0.8882	0.95
DC3000/delta hrp 12h	0.99304	1
DC3000/delta hrp 24h	1.06405	0.502

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	1.12404	1
Exp 36h	1.28298	0.489
Exp 60h	1.20248	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94386	1
Var 0h	0.7293	0.457
Var 12h I row2-row1	1.13034	0.506
Var 12h NI row2-row1	1.103	0.34
Var 36h I row2-row1	0.91065	1
Var 36h NI row2-row1	0.96699	0.791
Var 60h I row2-row1	0.96455	0.832
Var 60h NI row2-row1	1.02443	0.904
Time course 0hI-0hNI	0.96001	0.817
Time course 12hI-12hNI	1.55843	0.007
Time course 36hI-36hNI	1.25865	0.009
Time course 60hI-60hNI	1.07569	0.254

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)	1.09888	0.318
transgenic ySAMdc/azygous control (breaker)	1.03779	1
transgenic ySAMdc/azygous control (red)	1.01496	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96835	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10221	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94852	1
Manapal/WT (break)	0.90438	1
Manapal/WT (red)	1.04225	1