Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.19.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26826	0.755
27DAP/17DAP	0.86024	0.655
39DAP/27DAP	1.28371	0.361
41DAP/39DAP	0.88954	0.555
42DAP/41DAP	1.26362	0.797
43DAP/42DAP	1.23908	0.823
47DAP/43DAP	0.86868	0.568
52DAP/47DAP	0.88438	0.67
57DAP/52DAP	1.15253	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08034	1
17DAP/reference	1.35353	0.172
27DAP/reference	1.04345	1
39DAP/reference	1.09289	0.828
41DAP/reference	1.15631	0.093
42DAP/reference	1.05488	1
43DAP/reference	1.23922	0.403
47DAP/reference	1.05406	0.989
52DAP/reference	0.98989	0.564
57DAP/reference	1.30397	0.463

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03938	0.699
27DAP/17DAP	0.89488	0.259
39DAP/27DAP	0.94038	0.371
41DAP/39DAP	1.03509	0.801
42DAP/41DAP	1.00357	1
43DAP/42DAP	1.08392	0.045
47DAP/43DAP	1.04657	0.735
52DAP/47DAP	0.93272	0.433
57DAP/52DAP	0.99276	0.852
57DAP/7DAP	0.99025	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87733	0.27
17DAP/reference	1.24337	0.059
27DAP/reference	1.15757	0.246
39DAP/reference	1.09196	0.705
41DAP/reference	1.21301	0.101
42DAP/reference	1.16543	0.308
43DAP/reference	0.95865	0.403
47DAP/reference	0.99634	1
52DAP/reference	1.1694	0.048
57DAP/reference	0.97413	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7494	0.017
17DAP/reference	1.05259	0.805
27DAP/reference	0.84382	0.304
39DAP/reference	1.18331	0.463
41DAP/reference	1.04939	0.57
42DAP/reference	1.09101	0.73
43DAP/reference	1.16946	0.624
47DAP/reference	1.01046	0.812
52DAP/reference	0.97895	0.619
57DAP/reference	0.94427	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91672	0.335
17DAP/reference	0.96441	0.668
27DAP/reference	0.86253	0.27
39DAP/reference	1.0599	0.691
41DAP/reference	1.09553	0.637
42DAP/reference	1.01224	1
43DAP/reference	1.0587	0.867
47DAP/reference	0.71007	0.021
52DAP/reference	1.36015	0.228
57DAP/reference	1.09839	0.786

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20581	0.966
26DAP/20DAP	1.12649	0.464
34DAP/26DAP	0.96483	0.826
51DAP/34DAP	1.08869	0.458
52DAP/51DAP	1.04402	0.626
53DAP/52DAP	1.11939	0.171
55DAP/53DAP	1.01743	1
57DAP/55DAP	0.98654	0.891
62DAP/57DAP	0.88133	0.871
68DAP/62DAP	1.86711	0.206
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95332	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.63863	0.185
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.97073	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.97141	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.08255	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.09134	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.14843	0.277
IL2-6/WTpooled	1.13688	0.427
IL7-5/WTpooled	1.29273	0.792
IL7-3/WTpooled	1.0176	1
IL12-4/WTpooled	1.17301	0.646
IL1-4/WTpooled	1.25439	0.426
WT/WTpooled	0.98126	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	0.86342	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87219	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.19736	1
DC3000/delta hrp 24h	0.60843	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.71452	0.03
DC3000 delta B/DC3000 delta AB	0.66324	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9966	1
Var 0h	0.9937	1
Var 12h I row2-row1	0.85135	0.344
Var 12h NI row2-row1	1.07054	1
Var 36h I row2-row1	0.9464	1
Var 36h NI row2-row1	1.06979	1
Var 60h I row2-row1	0.92853	0.832
Var 60h NI row2-row1	0.93584	1
Time course 0hI-0hNI	0.96986	0.858
Time course 12hI-12hNI	1.0464	0.668
Time course 36hI-36hNI	1.01104	0.881
Time course 60hI-60hNI	0.77254	0.081

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)	0.89923	0.454
transgenic ySAMdc/azygous control (breaker)	1.80923	0.248
transgenic ySAMdc/azygous control (red)	1.13438	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.41873	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10909	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95023	1
Manapal/WT (break)	0.97862	1
Manapal/WT (red)	1.41744	0.222