Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.19.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76815	0.123
27DAP/17DAP	0.80467	0.575
39DAP/27DAP	1.1566	0.729
41DAP/39DAP	2.35354	0.522
42DAP/41DAP	0.84005	1
43DAP/42DAP	0.96016	0.898
47DAP/43DAP	0.97506	0.835
52DAP/47DAP	1.06806	0.916
57DAP/52DAP	1.13432	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15745	0.71
17DAP/reference	1.29073	0.193
27DAP/reference	1.16561	0.672
39DAP/reference	1.3176	0.165
41DAP/reference	1.23114	0.855
42DAP/reference	1.3721	0.219
43DAP/reference	1.30083
47DAP/reference	1.67802	0.148
52DAP/reference	1.17	0.991
57DAP/reference	0.97266	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87746	0.164
27DAP/17DAP	1.08944	0.751
39DAP/27DAP	0.91984	0.607
41DAP/39DAP	1.27592	0.735
42DAP/41DAP	0.9485	0.654
43DAP/42DAP	1.11702	0.212
47DAP/43DAP	1.25937	0.182
52DAP/47DAP	0.91481	0.719
57DAP/52DAP	1.24663	0.489
57DAP/7DAP	1.11495	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82047	0.091
17DAP/reference	0.97842	0.389
27DAP/reference	0.97063	0.43
39DAP/reference	0.86353	0.095
41DAP/reference	1.0809	0.745
42DAP/reference	1.14871	0.233
43DAP/reference	0.97917	0.502
47DAP/reference	0.89409	0.222
52DAP/reference	0.90905	0.057
57DAP/reference	0.92863	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09665	0.62
17DAP/reference	0.89585	0.253
27DAP/reference	1.06888	0.686
39DAP/reference	0.96201	0.469
41DAP/reference	1.20272	0.241
42DAP/reference	1.14579	0.24
43DAP/reference	1.21385	0.704
47DAP/reference	1.25475	0.527
52DAP/reference	0.85368	0.302
57DAP/reference	0.78691	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96528	0.422
17DAP/reference	1.07646	0.201
27DAP/reference	0.97809	0.657
39DAP/reference	1.00155	0.889
41DAP/reference	0.93299	0.264
42DAP/reference	1.06654	0.802
43DAP/reference	0.98729	0.639
47DAP/reference	0.97549	0.538
52DAP/reference	1.0373	0.946
57DAP/reference	1.00875	0.888

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01776	1
26DAP/20DAP	0.82159	1
34DAP/26DAP	1.20328	1
51DAP/34DAP	0.58271	0.217
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.20725	0.37
55DAP/53DAP	1.18338	0.737
57DAP/55DAP	1.02051	0.925
62DAP/57DAP	1.04124	1
68DAP/62DAP	1.24718	0.754
68DAP/14DAP	0.72832	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16279	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.04223	0.106
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	0.88942
1-1-2/M82	1.20988
12-2/M82	1.23943
12-4/M82	1.30182	1
1-3/M82	0.69491	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.91686
3-2/M82	1.04501
4-1-1/M82	0.89734	1
4-1/M82	1.75705
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.05005	0.496
6-2/M82	0.62534
6-3/M82	1.05863	1
7-1/M82	N/A	N/A
7-2/M82	0.60453
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	0.99146
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95155
IL12-4/WTpooled	1.40571	0.624
IL1-4/WTpooled	1.12238	1
WT/WTpooled	0.94972

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	0.82611	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03385	0.921
DC3000/delta hrp 6h	0.92687
DC3000/delta hrp 12h	1.05751	1
DC3000/delta hrp 24h	0.97371	0.818

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	0.56683	0.024

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	1.01763	1
Var 0h	4.01207	0.98
Var 12h I row2-row1	0.98154	0.948
Var 12h NI row2-row1	1.02663	1
Var 36h I row2-row1	0.91286	0.805
Var 36h NI row2-row1	1.1051	0.482
Var 60h I row2-row1	0.99643	1
Var 60h NI row2-row1	1.09878	0.904
Time course 0hI-0hNI	0.99708	0.973
Time course 12hI-12hNI	0.95621	0.628
Time course 36hI-36hNI	0.85889	0.067
Time course 60hI-60hNI	0.40892	0.009

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)	0.98784	0.862
transgenic ySAMdc/azygous control (breaker)	0.75179	0.251
transgenic ySAMdc/azygous control (red)	0.8727	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88827	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	0.79174	0.299
Manapal/WT (red)	1.07186	1