Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.15.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78291	0.19
27DAP/17DAP	1.20739	0.804
39DAP/27DAP	0.99635	0.857
41DAP/39DAP	1.2089	0.612
42DAP/41DAP	0.92912	1
43DAP/42DAP	0.97155	0.914
47DAP/43DAP	0.98265	0.729
52DAP/47DAP	1.6113	0.41
57DAP/52DAP	0.86018	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95521	0.442
17DAP/reference	1.10428	0.042
27DAP/reference	0.94563	0.339
39DAP/reference	1.00267	1
41DAP/reference	0.99398	1
42DAP/reference	0.84748	0.003
43DAP/reference	1.03536	0.73
47DAP/reference	0.87137	0.019
52DAP/reference	0.70307	0.016
57DAP/reference	0.76523	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81078	0.238
27DAP/17DAP	1.04224	0.932
39DAP/27DAP	1.1283	0.57
41DAP/39DAP	0.90651	0.747
42DAP/41DAP	1.00381	0.845
43DAP/42DAP	1.11178	0.413
47DAP/43DAP	1.05307	0.892
52DAP/47DAP	0.99144	0.93
57DAP/52DAP	0.90909	0.511
57DAP/7DAP	0.95905	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84457	0.077
17DAP/reference	0.77608	0.011
27DAP/reference	0.76675	0.01
39DAP/reference	0.79447	0.011
41DAP/reference	0.7553	0.009
42DAP/reference	0.80046	0.01
43DAP/reference	0.75834	0.013
47DAP/reference	0.81471	0.079
52DAP/reference	0.6834	0.018
57DAP/reference	0.69641	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03221	0.787
17DAP/reference	0.98171	0.536
27DAP/reference	0.8556	0.139
39DAP/reference	0.75753	0.032
41DAP/reference	0.83495	0.118
42DAP/reference	0.82429	0.042
43DAP/reference	1.09719	0.479
47DAP/reference	0.92839	0.068
52DAP/reference	0.89185	0.012
57DAP/reference	1.41754	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92201	0.311
17DAP/reference	1.28696	0.42
27DAP/reference	0.74321	0.031
39DAP/reference	0.80724	0.031
41DAP/reference	0.84778	0.018
42DAP/reference	0.78419	0.036
43DAP/reference	0.74975	0.048
47DAP/reference	0.9783	0.525
52DAP/reference	0.79872	0.172
57DAP/reference	0.5782	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93767	0.997
26DAP/20DAP	0.91128	0.512
34DAP/26DAP	0.81624	0.2
51DAP/34DAP	1.01457	0.988
52DAP/51DAP	0.99968	1
53DAP/52DAP	1.04605	0.806
55DAP/53DAP	1.02814	0.927
57DAP/55DAP	1.02625	0.961
62DAP/57DAP	1.2945	0.257
68DAP/62DAP	0.81935	0.245
68DAP/14DAP	0.5789	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65518	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.8531	0.166
Immature Eggplant/Mature Eggplant	0.67564	0.493
Ripe Pepper/Ripe Tomato	2.84933
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04294	1
1-1-2/M82	1.01374	1
12-2/M82	1.11711	1
12-4/M82	0.99264
1-3/M82	0.91423	0.441
2-1-1/M82	0.92465	0.92
2-1/M82	0.9794
2-6/M82	1.00129	1
3-2/M82	0.87902	0.752
4-1-1/M82	1.12003	0.72
4-1/M82	0.87763	1
4-3-2/M82	0.86864	1
4-3/M82	0.75346	0.611
5-3/M82	0.97463	1
6-2/M82	0.93503	1
6-3/M82	1.00795	1
7-1/M82	0.95389	0.803
7-2/M82	1.02755	1
9-3-2/M82	0.76361	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69936	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.47243	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.65629
IL1-4/WTpooled	1.28763	1
WT/WTpooled	N/A	N/A

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	1.2319

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01466	1
DC3000/delta hrp 6h	1.10993	1
DC3000/delta hrp 12h	1.46792	1
DC3000/delta hrp 24h	1.15548	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92529	0.318
DC3000 delta B/DC3000 delta AB	0.91474	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.81389	1
Exp 36h	0.85553	0.749
Exp 60h	0.8129	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9808	1
Var 0h	0.87445	0.933
Var 12h I row2-row1	1.09564	0.215
Var 12h NI row2-row1	1.01576	1
Var 36h I row2-row1	0.7709	0.805
Var 36h NI row2-row1	0.97519	0.743
Var 60h I row2-row1	1.80037	1
Var 60h NI row2-row1	1.29783	0.904
Time course 0hI-0hNI	0.95577	0.715
Time course 12hI-12hNI	0.97945	0.886
Time course 36hI-36hNI	0.88584	0.129
Time course 60hI-60hNI	1.05493	0.575

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)	0.96023	0.567
transgenic ySAMdc/azygous control (breaker)	1.02844	1
transgenic ySAMdc/azygous control (red)	1.11451	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04309	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05259	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03636	1
Manapal/WT (break)	1.10881	1
Manapal/WT (red)	0.77321	0.216