Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.14.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84662	0.419
27DAP/17DAP	0.84584	0.679
39DAP/27DAP	1.34024	0.129
41DAP/39DAP	0.9287	0.694
42DAP/41DAP	1.3263	0.712
43DAP/42DAP	1.12583	0.999
47DAP/43DAP	0.96496	0.821
52DAP/47DAP	1.1779	0.965
57DAP/52DAP	1.1461	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05706	0.46
17DAP/reference	0.89504	0.012
27DAP/reference	0.88315	0.059
39DAP/reference	0.91157	0.136
41DAP/reference	0.79232	0.013
42DAP/reference	1.10258	0.13
43DAP/reference	0.98637	0.763
47DAP/reference	1.08657	0.284
52DAP/reference	1.20956	0.354
57DAP/reference	1.15847	0.114

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95093	0.679
27DAP/17DAP	0.90483	0.58
39DAP/27DAP	1.11498	0.56
41DAP/39DAP	1.06188	0.88
42DAP/41DAP	1.04176	0.935
43DAP/42DAP	1.13525	0.112
47DAP/43DAP	0.95044	0.597
52DAP/47DAP	1.01735	0.979
57DAP/52DAP	0.86273	0.457
57DAP/7DAP	0.86911	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80015	0.06
17DAP/reference	0.84314	0.044
27DAP/reference	0.85545	0.019
39DAP/reference	0.75114	0.011
41DAP/reference	0.73389	0.027
42DAP/reference	0.66425	0.015
43DAP/reference	0.69466	0.014
47DAP/reference	0.90342	0.383
52DAP/reference	0.67212	0.02
57DAP/reference	0.62338	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09184	0.501
17DAP/reference	0.81414	0.086
27DAP/reference	1.1625	0.271
39DAP/reference	1.03681	1
41DAP/reference	1.1957	0.372
42DAP/reference	0.93827	0.289
43DAP/reference	1.2421	0.107
47DAP/reference	1.05193	0.454
52DAP/reference	0.95642	0.38
57DAP/reference	0.90937	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82404	0.057
17DAP/reference	1.00684	1
27DAP/reference	0.85186	0.055
39DAP/reference	0.85525	0.025
41DAP/reference	0.91322	0.077
42DAP/reference	0.97556	0.671
43DAP/reference	0.98126	0.545
47DAP/reference	1.163	0.073
52DAP/reference	0.98862	0.69
57DAP/reference	1.07459	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03382	1
26DAP/20DAP	1.14775	1
34DAP/26DAP	1.41062	0.819
51DAP/34DAP	1.06001	0.927
52DAP/51DAP	0.86227	0.067
53DAP/52DAP	1.33394	0.58
55DAP/53DAP	1.06565	1
57DAP/55DAP	1.30643	0.881
62DAP/57DAP	0.85435	0.28
68DAP/62DAP	1.17153	0.672
68DAP/14DAP	0.9684	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.89454	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21138	0.068
Mature Green Tomato/Ripe Tomato	1.02554	0.66
Immature Eggplant/Mature Eggplant	0.93053	0.545
Ripe Pepper/Ripe Tomato	1.44747	0.258
Mature Eggplant/Ripe Tomato	0.75413	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03792	1
1-1-2/M82	0.98712	1
12-2/M82	0.85096	0.692
12-4/M82	0.89733	1
1-3/M82	N/A	N/A
2-1-1/M82	0.8974	0.465
2-1/M82	0.98426
2-6/M82	1.21148
3-2/M82	N/A	N/A
4-1-1/M82	1.1796	1
4-1/M82	N/A	N/A
4-3-2/M82	1.31985
4-3/M82	1.29084	0.268
5-3/M82	1.01695	1
6-2/M82	1.17561
6-3/M82	1.03976	1
7-1/M82	N/A	N/A
7-2/M82	1.06209
9-3-2/M82	0.89081	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06814	0.493
IL2-6/WTpooled	0.91185	0.473
IL7-5/WTpooled	1.32602	0.792
IL7-3/WTpooled	1.1004	1
IL12-4/WTpooled	1.04641	0.785
IL1-4/WTpooled	1.10207	1
WT/WTpooled	0.97789	0.962

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	0.9539	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09003	0.774
DC3000/delta hrp 6h	0.98006	0.95
DC3000/delta hrp 12h	0.9448	1
DC3000/delta hrp 24h	1.03478	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97731	1
DC3000 delta B/DC3000 delta AB	1.03234	0.601

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15623	1
Exp 36h	1.05816	1
Exp 60h	0.91317	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03516	1
Var 0h	1.06435	0.98
Var 12h I row2-row1	0.97856	0.856
Var 12h NI row2-row1	1.06632	0.649
Var 36h I row2-row1	0.92689	1
Var 36h NI row2-row1	0.92237	0.549
Var 60h I row2-row1	0.95095	0.952
Var 60h NI row2-row1	0.95215	0.866
Time course 0hI-0hNI	1.01385	0.852
Time course 12hI-12hNI	1.02702	0.762
Time course 36hI-36hNI	1.13357	0.05
Time course 60hI-60hNI	1.27622	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)	0.98019	0.722
transgenic ySAMdc/azygous control (breaker)	1.00941	1
transgenic ySAMdc/azygous control (red)	1.04025	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98899	0.737

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98336	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06918	1
Manapal/WT (break)	0.78967	0.333
Manapal/WT (red)	0.87373	0.229