Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94979	0.683
27DAP/17DAP	0.84568	0.583
39DAP/27DAP	1.06691	1
41DAP/39DAP	1.07142	0.918
42DAP/41DAP	1.31427	0.366
43DAP/42DAP	1.11223	1
47DAP/43DAP	0.8855	0.625
52DAP/47DAP	1.18687	0.718
57DAP/52DAP	1.4072	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08346	0.303
17DAP/reference	1.08116	0.248
27DAP/reference	0.97773	0.668
39DAP/reference	1.03886	0.581
41DAP/reference	1.0507	0.451
42DAP/reference	1.04835	0.414
43DAP/reference	1.05673	0.287
47DAP/reference	1.24386	0.01
52DAP/reference	1.02559	1
57DAP/reference	1.1166	0.094

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01328	0.899
27DAP/17DAP	1.16537	0.523
39DAP/27DAP	1.01471	1
41DAP/39DAP	1.07336	1
42DAP/41DAP	1.06541	0.947
43DAP/42DAP	0.90914	0.415
47DAP/43DAP	1.05856	0.892
52DAP/47DAP	0.97166	0.9
57DAP/52DAP	1.15567	0.282
57DAP/7DAP	1.07983	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89575	0.157
17DAP/reference	0.77361	0.011
27DAP/reference	0.79257	0.01
39DAP/reference	0.74264	0.011
41DAP/reference	0.78114	0.012
42DAP/reference	0.69994	0.01
43DAP/reference	0.65563	0.011
47DAP/reference	1.03728	1
52DAP/reference	0.63105	0.01
57DAP/reference	0.73255	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97226	0.607
17DAP/reference	0.9073	0.149
27DAP/reference	1.02098	0.79
39DAP/reference	0.9883	0.569
41DAP/reference	1.01492	0.702
42DAP/reference	1.00515	0.723
43DAP/reference	0.93727	0.404
47DAP/reference	1.11767	0.225
52DAP/reference	0.9715	0.469
57DAP/reference	0.97443	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90105	0.183
17DAP/reference	0.93659	0.452
27DAP/reference	0.7955	0.073
39DAP/reference	0.78304	0.046
41DAP/reference	0.78661	0.027
42DAP/reference	0.78071	0.059
43DAP/reference	0.80928	0.044
47DAP/reference	1.16102	0.026
52DAP/reference	1.01033	0.704
57DAP/reference	1.111	0.924

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26777	0.786
26DAP/20DAP	2.70227	0.097
34DAP/26DAP	0.7587	0.343
51DAP/34DAP	1.19485	0.271
52DAP/51DAP	0.93669	1
53DAP/52DAP	1.04132	0.662
55DAP/53DAP	0.69226	0.02
57DAP/55DAP	0.98	0.867
62DAP/57DAP	1.43415	0.185
68DAP/62DAP	1.24302	0.405
68DAP/14DAP	1.8763	0.08

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89237	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60599	0.137
Mature Green Tomato/Ripe Tomato	0.69023	0.096
Immature Eggplant/Mature Eggplant	1.84563	0.051
Ripe Pepper/Ripe Tomato	1.7518	0.258
Mature Eggplant/Ripe Tomato	1.74402	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.6303	0.526
1-1-2/M82	1.41028	1
12-2/M82	0.94175	0.955
12-4/M82	1.11432	1
1-3/M82	4.31091	0.26
2-1-1/M82	1.06307	0.689
2-1/M82	1.25291	1
2-6/M82	2.51253	0.425
3-2/M82	0.60419
4-1-1/M82	1.62318	1
4-1/M82	N/A	N/A
4-3-2/M82	3.01545
4-3/M82	2.65957	1
5-3/M82	1.10537	0.572
6-2/M82	1.48424	1
6-3/M82	1.18734	1
7-1/M82	1.50269	0.992
7-2/M82	3.62458	0.291
9-3-2/M82	2.86256

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0699	0.277
IL2-6/WTpooled	1.2354	0.441
IL7-5/WTpooled	1.09482	1
IL7-3/WTpooled	0.66506	0.31
IL12-4/WTpooled	0.88901	0.71
IL1-4/WTpooled	1.05148	1
WT/WTpooled	0.96884	0.873

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	1.40772	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95056	1
DC3000/delta hrp 6h	0.95259	0.95
DC3000/delta hrp 12h	0.9748	1
DC3000/delta hrp 24h	1.25987	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26934	0.057
DC3000 delta B/DC3000 delta AB	1.44877	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98293	1
Exp 36h	1.86188	0.489
Exp 60h	1.61082	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01447	1
Var 0h	0.72184	1
Var 12h I row2-row1	0.88806	0.565
Var 12h NI row2-row1	1.58679	0.281
Var 36h I row2-row1	1.14735	1
Var 36h NI row2-row1	0.68786	0.382
Var 60h I row2-row1	0.70445	0.285
Var 60h NI row2-row1	0.6831	0.335
Time course 0hI-0hNI	0.98922	0.943
Time course 12hI-12hNI	1.3041	0.096
Time course 36hI-36hNI	3.46649	0.004
Time course 60hI-60hNI	13.9359	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)	0.9552	0.567
transgenic ySAMdc/azygous control (breaker)	0.56139	0.131
transgenic ySAMdc/azygous control (red)	0.9722	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08732	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.36143	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.57319	0.105
Manapal/WT (break)	1.44418	0.183
Manapal/WT (red)	3.04427	0.134