Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90908	0.543
27DAP/17DAP	1.33792	0.688
39DAP/27DAP	1.1232	0.789
41DAP/39DAP	1.24141	0.426
42DAP/41DAP	2.6773	0.02
43DAP/42DAP	1.04708	1
47DAP/43DAP	1.03729	0.909
52DAP/47DAP	0.7807	0.471
57DAP/52DAP	1.19922	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99033	0.661
17DAP/reference	1.02458	0.201
27DAP/reference	0.98376	0.668
39DAP/reference	1.0198	0.497
41DAP/reference	1.06822	0.365
42DAP/reference	1.02146	0.995
43DAP/reference	0.9404	0.163
47DAP/reference	0.96559	0.224
52DAP/reference	0.94122	0.319
57DAP/reference	1.02794	0.762

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03516	0.91
27DAP/17DAP	1.26203	0.598
39DAP/27DAP	1.3992	0.128
41DAP/39DAP	0.67088	0.158
42DAP/41DAP	1.46164	0.016
43DAP/42DAP	2.67022	0.013
47DAP/43DAP	0.81173	0.037
52DAP/47DAP	1.47328	0.122
57DAP/52DAP	1.00038	0.841
57DAP/7DAP	3.40882	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80158	0.104
17DAP/reference	0.92019	0.144
27DAP/reference	1.03532	0.664
39DAP/reference	0.98416	0.552
41DAP/reference	0.90394	0.073
42DAP/reference	0.95667	0.415
43DAP/reference	1.05185	0.746
47DAP/reference	0.92113	0.293
52DAP/reference	1.07075	0.886
57DAP/reference	1.10032	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9879	0.756
17DAP/reference	0.98479	0.594
27DAP/reference	0.9239	0.304
39DAP/reference	0.88226	0.136
41DAP/reference	0.90997	0.037
42DAP/reference	0.89864	0.169
43DAP/reference	1.0821	0.522
47DAP/reference	0.99734	0.77
52DAP/reference	0.94462	0.143
57DAP/reference	0.98609	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75741	0.034
17DAP/reference	0.97321	0.636
27DAP/reference	0.91673	0.195
39DAP/reference	0.92012	0.299
41DAP/reference	0.97646	0.459
42DAP/reference	0.98432	0.671
43DAP/reference	0.94749	0.305
47DAP/reference	1.05532	0.251
52DAP/reference	0.93602	0.433
57DAP/reference	0.80767	0.038

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00435	1
26DAP/20DAP	0.83921	1
34DAP/26DAP	0.86314	0.874
51DAP/34DAP	0.91402	0.587
52DAP/51DAP	1.20251	0.404
53DAP/52DAP	1.15175	0.83
55DAP/53DAP	0.94225	0.709
57DAP/55DAP	0.97612	0.904
62DAP/57DAP	1.18458	0.767
68DAP/62DAP	0.88522	0.641
68DAP/14DAP	1.50594	0.487

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.97365	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85073	0.447
Mature Green Tomato/Ripe Tomato	0.42261	0.028
Immature Eggplant/Mature Eggplant	1.28222	0.081
Ripe Pepper/Ripe Tomato	0.74351	1
Mature Eggplant/Ripe Tomato	0.80373	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.46796	0.742
1-1-2/M82	1.10457	1
12-2/M82	1.04546	1
12-4/M82	1.60514	1
1-3/M82	1.3523
2-1-1/M82	1.28037	0.689
2-1/M82	1.30117	1
2-6/M82	0.73836	1
3-2/M82	1.68038	0.84
4-1-1/M82	1.02871	1
4-1/M82	1.21895	1
4-3-2/M82	1.17465	1
4-3/M82	1.67683	1
5-3/M82	0.91693	1
6-2/M82	1.94892
6-3/M82	0.92082	1
7-1/M82	0.95961
7-2/M82	N/A	N/A
9-3-2/M82	1.38901	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85169	0.321
IL2-6/WTpooled	1.0091	1
IL7-5/WTpooled	2.29498	0.792
IL7-3/WTpooled	1.10159	1
IL12-4/WTpooled	1.32607	0.737
IL1-4/WTpooled	0.97675	1
WT/WTpooled	1.00363	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06826	0.894
DC3000/delta hrp 6h	1.08139	1
DC3000/delta hrp 12h	1.00022	1
DC3000/delta hrp 24h	1.07714	0.411

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	1.09716	1
Exp 60h	1.14475	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01217	1
Var 0h	1.92794	0.594
Var 12h I row2-row1	0.8344	0.77
Var 12h NI row2-row1	0.80346	0.443
Var 36h I row2-row1	1.09287	1
Var 36h NI row2-row1	0.98723	0.852
Var 60h I row2-row1	1.0533	0.347
Var 60h NI row2-row1	1.19683	0.904
Time course 0hI-0hNI	1.08997	0.833
Time course 12hI-12hNI	1.04087	0.72
Time course 36hI-36hNI	0.88984	0.302
Time course 60hI-60hNI	1.04109	0.673

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)	0.87973	0.377
transgenic ySAMdc/azygous control (breaker)	1.48913	0.248
transgenic ySAMdc/azygous control (red)	1.31639	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98351	0.168

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98695	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89459	1
Manapal/WT (break)	0.8739	1
Manapal/WT (red)	0.56504	0.199