Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.11.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.55896	0.018
27DAP/17DAP	1.06796	0.88
39DAP/27DAP	1.44344	0.476
41DAP/39DAP	1.04156	0.822
42DAP/41DAP	0.69538	0.397
43DAP/42DAP	0.71652	0.386
47DAP/43DAP	0.91547	0.699
52DAP/47DAP	1.88692	0.207
57DAP/52DAP	0.94529	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37089	0.049
17DAP/reference	0.98897	0.777
27DAP/reference	0.94618	0.406
39DAP/reference	0.9993	0.941
41DAP/reference	1.00779	1
42DAP/reference	1.06223	0.782
43DAP/reference	0.90071	0.429
47DAP/reference	0.95665	0.345
52DAP/reference	0.90227	0.275
57DAP/reference	0.902	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.52978	0.036
27DAP/17DAP	1.37481	0.69
39DAP/27DAP	1.26285	0.27
41DAP/39DAP	1.79155	0.018
42DAP/41DAP	0.70638	0.063
43DAP/42DAP	0.97538	0.684
47DAP/43DAP	1.05367	0.956
52DAP/47DAP	1.70449	0.079
57DAP/52DAP	1.72876	0.159
57DAP/7DAP	1.27639	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50024	0.035
17DAP/reference	1.61811	0.008
27DAP/reference	1.37509	0.008
39DAP/reference	1.83337	0.029
41DAP/reference	1.57413	0.023
42DAP/reference	1.58789	0.012
43DAP/reference	1.79123	0.007
47DAP/reference	1.5739	0.077
52DAP/reference	1.69376	0.043
57DAP/reference	1.59268	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19285	0.384
17DAP/reference	1.28799	0.008
27DAP/reference	1.1645	0.345
39DAP/reference	1.54122	0.061
41DAP/reference	1.07379	0.846
42DAP/reference	1.08099	0.744
43DAP/reference	1.21228	0.235
47DAP/reference	1.10517	0.164
52DAP/reference	1.20235	0.114
57DAP/reference	1.30997	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68288	0.016
17DAP/reference	1.00726	0.855
27DAP/reference	1.52026	0.027
39DAP/reference	1.42731	0.013
41DAP/reference	1.1539	0.089
42DAP/reference	1.02722	1
43DAP/reference	1.06659	0.599
47DAP/reference	0.93065	0.259
52DAP/reference	1.88135	0.081
57DAP/reference	0.95951	0.416

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08199	0.966
26DAP/20DAP	0.97906	1
34DAP/26DAP	1.31506	0.542
51DAP/34DAP	1.09922	0.814
52DAP/51DAP	1.28097	0.114
53DAP/52DAP	0.81068	0.25
55DAP/53DAP	1.57641	0.656
57DAP/55DAP	0.94105	0.718
62DAP/57DAP	1.06836	0.767
68DAP/62DAP	1.14988	0.919
68DAP/14DAP	1.28226	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.60805	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.53466	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.08626	0.224
Mature Eggplant/Ripe Tomato	0.10641	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.31183	0.551
1-1-2/M82	1.13758	1
12-2/M82	1.3701	1
12-4/M82	0.89722
1-3/M82	2.07557	0.277
2-1-1/M82	1.13159	1
2-1/M82	1.24134	1
2-6/M82	1.09882	0.452
3-2/M82	1.24747
4-1-1/M82	1.10051	1
4-1/M82	1.40314
4-3-2/M82	0.97441	1
4-3/M82	2.11893	0.268
5-3/M82	0.90173	0.642
6-2/M82	2.67787	0.235
6-3/M82	1.19585	1
7-1/M82	1.22147	1
7-2/M82	0.99449	1
9-3-2/M82	0.75258

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66362	1
IL2-6/WTpooled	0.96692	1
IL7-5/WTpooled	0.86551	1
IL7-3/WTpooled	0.83117	0.294
IL12-4/WTpooled	0.98095	1
IL1-4/WTpooled	1.11853	0.426
WT/WTpooled	0.94338	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	2.31524	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13106	0.724
DC3000/delta hrp 6h	1.20235	1
DC3000/delta hrp 12h	0.88803	1
DC3000/delta hrp 24h	1.229	0.077

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.66952	0.328
Exp 36h	2.1584	0.326
Exp 60h	1.38155	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93375	1
Var 0h	0.79122	1
Var 12h I row2-row1	1.06428	0.379
Var 12h NI row2-row1	0.87335	0.494
Var 36h I row2-row1	1.18313	0.742
Var 36h NI row2-row1	1.14447	0.253
Var 60h I row2-row1	1.36008	0.562
Var 60h NI row2-row1	0.9767	1
Time course 0hI-0hNI	0.81626	0.629
Time course 12hI-12hNI	1.27574	0.006
Time course 36hI-36hNI	2.74473	0.005
Time course 60hI-60hNI	2.64446	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)	1.05637	0.318
transgenic ySAMdc/azygous control (breaker)	0.37361	0.119
transgenic ySAMdc/azygous control (red)	0.85355	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95582	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06447	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95954	1
Manapal/WT (break)	0.65756	1
Manapal/WT (red)	0.60997	0.216