Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.17.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19236	0.588
27DAP/17DAP	1.34793	0.842
39DAP/27DAP	0.79738	0.443
41DAP/39DAP	1.47508	0.318
42DAP/41DAP	1.35154	0.599
43DAP/42DAP	0.98408	0.918
47DAP/43DAP	1.13589	0.52
52DAP/47DAP	1.0408	0.906
57DAP/52DAP	0.905	0.852

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07592	0.55
17DAP/reference	0.9663	0.664
27DAP/reference	1.16991	0.271
39DAP/reference	0.96532	0.611
41DAP/reference	0.93472	0.341
42DAP/reference	1.23881	0.103
43DAP/reference	0.9764	0.675
47DAP/reference	1.20235	0.065
52DAP/reference	1.52711	0.017
57DAP/reference	1.58445	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22312	0.379
27DAP/17DAP	1.04576	1
39DAP/27DAP	1.02264	1
41DAP/39DAP	1.21137	0.682
42DAP/41DAP	0.94868	0.635
43DAP/42DAP	0.94174	0.665
47DAP/43DAP	0.88912	0.31
52DAP/47DAP	1.11652	0.689
57DAP/52DAP	0.87895	0.48
57DAP/7DAP	1.20951	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52291	0.043
17DAP/reference	1.20453	0.035
27DAP/reference	1.39603	0.03
39DAP/reference	1.28571	0.028
41DAP/reference	1.53368	0.008
42DAP/reference	1.6537	0.007
43DAP/reference	1.99826	0.006
47DAP/reference	1.49321	0.145
52DAP/reference	1.76397	0.015
57DAP/reference	1.43375	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02967	0.993
17DAP/reference	0.92839	0.389
27DAP/reference	0.87182	0.249
39DAP/reference	1.05811	0.935
41DAP/reference	1.27082	0.122
42DAP/reference	1.18483	0.509
43DAP/reference	1.12041	1
47DAP/reference	1.0755	0.454
52DAP/reference	0.94098	0.327
57DAP/reference	0.94242	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54056	0.019
17DAP/reference	1.11366	0.612
27DAP/reference	1.23882	0.188
39DAP/reference	1.34874	0.02
41DAP/reference	1.19536	0.067
42DAP/reference	1.39578	0.012
43DAP/reference	1.19218	0.128
47DAP/reference	1.12181	0.847
52DAP/reference	1.05075	0.952
57DAP/reference	1.21096	0.428

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06643	1
26DAP/20DAP	1.04062	1
34DAP/26DAP	1.09364	1
51DAP/34DAP	0.97299	0.807
52DAP/51DAP	1.08086	0.904
53DAP/52DAP	0.88546	0.695
55DAP/53DAP	1.31949	0.335
57DAP/55DAP	1.0656	0.969
62DAP/57DAP	1.15461	0.868
68DAP/62DAP	0.95484	0.81
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05134	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.91136	0.446
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	0.4618
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	0.37349
4-3-2/M82	0.79807
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	1.26841
9-3-2/M82	N/A	N/A

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	N/A	N/A
IL7-3/WTpooled	1.32855
IL12-4/WTpooled	1.35355
IL1-4/WTpooled	0.99956	1
WT/WTpooled	0.96081	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	0.67008	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95598	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.10909	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60965	0.023
DC3000 delta B/DC3000 delta AB	0.60677	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	1.0493	1
Var 0h	1.0799	0.936
Var 12h I row2-row1	0.79503	0.467
Var 12h NI row2-row1	0.95831	0.906
Var 36h I row2-row1	0.96614	1
Var 36h NI row2-row1	1.08741	1
Var 60h I row2-row1	1.11623	0.543
Var 60h NI row2-row1	1.00309	1
Time course 0hI-0hNI	1.06361	0.799
Time course 12hI-12hNI	0.94197	0.612
Time course 36hI-36hNI	0.86731	0.081
Time course 60hI-60hNI	0.22274	0.007

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.44586	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	1.45341	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.10272	1
Manapal/WT (red)	N/A	N/A