Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80144	0.265
27DAP/17DAP	0.9274	0.863
39DAP/27DAP	1.39542	0.384
41DAP/39DAP	0.91109	0.563
42DAP/41DAP	1.17223	0.941
43DAP/42DAP	0.9667	0.877
47DAP/43DAP	0.79815	0.39
52DAP/47DAP	0.97323	0.837
57DAP/52DAP	1.38311	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96415	0.402
17DAP/reference	0.98397	0.701
27DAP/reference	0.9533	0.497
39DAP/reference	0.9659	0.424
41DAP/reference	0.96933	0.114
42DAP/reference	0.9808	0.268
43DAP/reference	0.95652	0.273
47DAP/reference	1.00284	1
52DAP/reference	0.95092	0.237
57DAP/reference	1.02367	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75326	0.185
27DAP/17DAP	0.91027	0.614
39DAP/27DAP	1.00365	1
41DAP/39DAP	1.27335	0.096
42DAP/41DAP	0.90819	0.298
43DAP/42DAP	0.84172	0.045
47DAP/43DAP	0.96405	0.743
52DAP/47DAP	0.89531	0.397
57DAP/52DAP	1.27445	0.259
57DAP/7DAP	0.83203	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.81875	0.031
17DAP/reference	1.21117	0.244
27DAP/reference	1.08917	0.453
39DAP/reference	0.95382	0.354
41DAP/reference	0.89907	0.116
42DAP/reference	1.05342	0.686
43DAP/reference	1.15022	0.241
47DAP/reference	1.56862	0.018
52DAP/reference	1.14222	0.086
57DAP/reference	0.97185	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10127	0.203
17DAP/reference	0.99498	0.728
27DAP/reference	1.09372	0.535
39DAP/reference	1.06967	0.366
41DAP/reference	0.93553	0.256
42DAP/reference	1.04917	0.621
43DAP/reference	0.91079	0.196
47DAP/reference	1.10223	0.056
52DAP/reference	0.92596	0.101
57DAP/reference	0.83264	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52153	0.028
17DAP/reference	1.01695	0.912
27DAP/reference	1.11375	0.447
39DAP/reference	1.02435	0.578
41DAP/reference	1.01321	1
42DAP/reference	0.85983	0.019
43DAP/reference	0.89836	0.226
47DAP/reference	0.93853	0.139
52DAP/reference	1.12463	0.965
57DAP/reference	1.16434	0.285

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08262	0.966
26DAP/20DAP	1.26821	0.315
34DAP/26DAP	0.89459	0.627
51DAP/34DAP	1.41354	0.084
52DAP/51DAP	1.0198	0.965
53DAP/52DAP	1.10769	0.261
55DAP/53DAP	0.84194	0.181
57DAP/55DAP	1.25003	0.805
62DAP/57DAP	1.11348	0.678
68DAP/62DAP	1.48088	0.015
68DAP/14DAP	1.78114	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8944	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82642	0.279
Mature Green Tomato/Ripe Tomato	1.26781	0.399
Immature Eggplant/Mature Eggplant	1.3329	0.05
Ripe Pepper/Ripe Tomato	1.68312	1
Mature Eggplant/Ripe Tomato	3.14425	0.26

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	1.12857
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	2.16053
5-3/M82	0.75291
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	1.54528

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.35997
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.13101	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11383	0.921
DC3000/delta hrp 6h	1.00558	1
DC3000/delta hrp 12h	0.9815	1
DC3000/delta hrp 24h	1.12706	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14309	0.408
DC3000 delta B/DC3000 delta AB	1.21186	0.304

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91106	1
Exp 36h	1.71389	0.489
Exp 60h	1.75081	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98336	1
Var 0h	0.72276	1
Var 12h I row2-row1	1.0071	1
Var 12h NI row2-row1	1.12993	0.34
Var 36h I row2-row1	1.03495	1
Var 36h NI row2-row1	0.95656	0.61
Var 60h I row2-row1	0.91674	0.952
Var 60h NI row2-row1	0.95344	1
Time course 0hI-0hNI	0.9966	1
Time course 12hI-12hNI	1.1089	0.12
Time course 36hI-36hNI	1.80088	0.004
Time course 60hI-60hNI	3.05095	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)	1.10593	0.3
transgenic ySAMdc/azygous control (breaker)	0.62833	0.134
transgenic ySAMdc/azygous control (red)	1.34988	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04385	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94185	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09937	0.307
Manapal/WT (break)	1.10975	1
Manapal/WT (red)	1.0437	1