Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.17.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32147	0.452
27DAP/17DAP	1.25641	0.89
39DAP/27DAP	1.40114	0.672
41DAP/39DAP	0.77854	0.389
42DAP/41DAP	1.02642	0.994
43DAP/42DAP	1.09003	1
47DAP/43DAP	1.30036	0.448
52DAP/47DAP	7.99641	0.388
57DAP/52DAP	1.0035	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94794	0.39
17DAP/reference	0.82905	0.022
27DAP/reference	0.95262	0.304
39DAP/reference	0.96278	0.446
41DAP/reference	0.86438	0.039
42DAP/reference	0.85534	0.001
43DAP/reference	0.89247	0.067
47DAP/reference	0.91086	0.021
52DAP/reference	1.0526	0.524
57DAP/reference	1.05655	0.478

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08831	0.736
27DAP/17DAP	1.16341	0.579
39DAP/27DAP	1.01623	1
41DAP/39DAP	1.21927	0.909
42DAP/41DAP	0.99314	0.853
43DAP/42DAP	0.80946	0.046
47DAP/43DAP	1.28917	0.182
52DAP/47DAP	0.92018	0.726
57DAP/52DAP	1.28709	0.438
57DAP/7DAP	0.91164	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21349	0.181
17DAP/reference	1.11023	0.627
27DAP/reference	0.96114	0.375
39DAP/reference	1.23625	0.081
41DAP/reference	1.25281	0.042
42DAP/reference	1.20595	0.076
43DAP/reference	1.35206	0.188
47DAP/reference	1.02425	0.932
52DAP/reference	1.3818	0.012
57DAP/reference	1.1426	0.07

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84817	0.096
17DAP/reference	0.77507	0.005
27DAP/reference	0.91242	0.203
39DAP/reference	1.03723	0.725
41DAP/reference	1.06413	0.672
42DAP/reference	0.99023	0.594
43DAP/reference	0.90922	0.105
47DAP/reference	0.87721	0.092
52DAP/reference	0.97831	0.5
57DAP/reference	0.81533	0.006

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99344	0.653
17DAP/reference	1.0814	0.638
27DAP/reference	1.16678	0.115
39DAP/reference	1.14497	0.091
41DAP/reference	1.05498	0.605
42DAP/reference	0.91602	0.361
43DAP/reference	1.04777	0.734
47DAP/reference	0.9196	0.191
52DAP/reference	0.72583	0.095
57DAP/reference	1.05963	0.501

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90915	0.961
26DAP/20DAP	1.46787	0.118
34DAP/26DAP	1.09989	1
51DAP/34DAP	0.7622	0.508
52DAP/51DAP	1.48959	0.588
53DAP/52DAP	1.13966	0.858
55DAP/53DAP	1.27081	0.855
57DAP/55DAP	0.92044	0.647
62DAP/57DAP	1.06619	0.935
68DAP/62DAP	2.01534	0.024
68DAP/14DAP	2.15392	0.029

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75573	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.05263	0.068
Mature Green Tomato/Ripe Tomato	2.91538	0.015
Immature Eggplant/Mature Eggplant	13.9178
Ripe Pepper/Ripe Tomato	13.2106	0.258
Mature Eggplant/Ripe Tomato	N/A	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	N/A	N/A
1-3/M82	0.72703
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	0.64748
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.76745
5-3/M82	0.88215	1
6-2/M82	0.76128
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.49477	0.277
IL2-6/WTpooled	0.67643	0.473
IL7-5/WTpooled	1.48916
IL7-3/WTpooled	1.43317	1
IL12-4/WTpooled	1.08073	0.891
IL1-4/WTpooled	0.75054	0.444
WT/WTpooled	0.89427	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	1.40982	0.083

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06168	0.921
DC3000/delta hrp 6h	0.57314
DC3000/delta hrp 12h	0.97521	1
DC3000/delta hrp 24h	1.00767	1

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	1.14918	1
Exp 36h	3.38268	1
Exp 60h	1.73367	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.88961	1
Var 0h	0.9802	1
Var 12h I row2-row1	1.13792	0.406
Var 12h NI row2-row1	1.13685	0.649
Var 36h I row2-row1	1.2066	0.601
Var 36h NI row2-row1	1.04016	1
Var 60h I row2-row1	1.03899	1
Var 60h NI row2-row1	0.87266	0.932
Time course 0hI-0hNI	0.82722	1
Time course 12hI-12hNI	0.98947	0.984
Time course 36hI-36hNI	1.44276	0.011
Time course 60hI-60hNI	2.2206	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)	1.05933	0.798
transgenic ySAMdc/azygous control (breaker)	0.89134	0.49
transgenic ySAMdc/azygous control (red)	1.02247	1

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	0.51403	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.16858	0.14
Manapal/WT (break)	2.42534	0.126
Manapal/WT (red)	1.10451	1