Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-3.1.8.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06547	0.912
27DAP/17DAP	1.25578	0.799
39DAP/27DAP	1.02274	0.84
41DAP/39DAP	1.36518	0.32
42DAP/41DAP	1.17057	0.938
43DAP/42DAP	0.98632	0.931
47DAP/43DAP	1.00856	0.879
52DAP/47DAP	1.34558	0.487
57DAP/52DAP	0.88277	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87598	0.128
17DAP/reference	1.53771	0.342
27DAP/reference	1.36371	0.143
39DAP/reference	1.12024	0.76
41DAP/reference	1.09606	0.759
42DAP/reference	1.31514	0.324
43DAP/reference	1.28851	0.445
47DAP/reference	1.31984	0.007
52DAP/reference	1.61535	0.371
57DAP/reference	1.05574	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96246	0.629
27DAP/17DAP	1.42994	0.482
39DAP/27DAP	1.13391	0.512
41DAP/39DAP	0.94958	0.875
42DAP/41DAP	1.1551	0.273
43DAP/42DAP	1.04039	0.699
47DAP/43DAP	1.0279	0.939
52DAP/47DAP	1.09163	0.703
57DAP/52DAP	1.05778	0.806
57DAP/7DAP	0.82021	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62918	0.091
17DAP/reference	0.85938	0.22
27DAP/reference	1.08473	0.009
39DAP/reference	0.68858	0.015
41DAP/reference	0.84943	0.184
42DAP/reference	0.81374	0.012
43DAP/reference	0.99713	0.694
47DAP/reference	1.17004	0.804
52DAP/reference	1.1668	0.563
57DAP/reference	0.98551	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77148	0.115
17DAP/reference	0.94523	0.487
27DAP/reference	0.91006	0.352
39DAP/reference	1.28204	0.054
41DAP/reference	0.96329	0.441
42DAP/reference	0.80349	0.135
43DAP/reference	0.76123	0.229
47DAP/reference	0.942	0.328
52DAP/reference	1.15974	0.368
57DAP/reference	1.31289	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82225	0.362
17DAP/reference	1.02299	0.944
27DAP/reference	N/A	N/A
39DAP/reference	0.9288	N/A
41DAP/reference	1.59687	N/A
42DAP/reference	1.26061	0.027
43DAP/reference	1.03998	0.858
47DAP/reference	1.11738	0.901
52DAP/reference	1.02639	0.8
57DAP/reference	2.45628	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16436	0.966
26DAP/20DAP	0.89949	0.512
34DAP/26DAP	1.16935	1
51DAP/34DAP	1.2896	0.224
52DAP/51DAP	1.19787	0.232
53DAP/52DAP	0.94858	0.732
55DAP/53DAP	1.10217	0.519
57DAP/55DAP	0.91217	0.629
62DAP/57DAP	1.01125	1
68DAP/62DAP	0.86681	0.641
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61604	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.74312	0.132
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	0.60639	N/A
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	N/A	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	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	0.97227	1
IL12-4/WTpooled	0.73102	0.554
IL1-4/WTpooled	1.21381	1
WT/WTpooled	0.72407	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	1.02672	1

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

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

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97204	1
DC3000 delta B/DC3000 delta AB	0.90283	0.162

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	0.99321	1
Var 0h	0.45122	0.21
Var 12h I row2-row1	0.98697	1
Var 12h NI row2-row1	0.90315	0.488
Var 36h I row2-row1	0.94238	1
Var 36h NI row2-row1	0.88455	0.743
Var 60h I row2-row1	1.01596	1
Var 60h NI row2-row1	1.01551	1
Time course 0hI-0hNI	1.08579	0.451
Time course 12hI-12hNI	1.00721	0.842
Time course 36hI-36hNI	0.97093	0.323
Time course 60hI-60hNI	1.05291	0.254

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)	1.53452	0.662
transgenic ySAMdc/azygous control (breaker)	0.97332	1
transgenic ySAMdc/azygous control (red)	0.56805	0.47

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15433	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98488	0.789

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)	0.8875	1
Manapal/WT (red)	N/A	N/A