Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89767	0.503
27DAP/17DAP	1.23296	0.849
39DAP/27DAP	2.25626	0.025
41DAP/39DAP	0.5993	0.045
42DAP/41DAP	0.60634	0.774
43DAP/42DAP	0.73806	0.571
47DAP/43DAP	1.12803	0.68
52DAP/47DAP	1.28947	0.754
57DAP/52DAP	1.44793	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.92157	0.008
17DAP/reference	1.12318	0.108
27DAP/reference	0.95558	0.525
39DAP/reference	1.00362	0.975
41DAP/reference	0.83632	0.065
42DAP/reference	1.31384	0.012
43DAP/reference	1.17826	0.026
47DAP/reference	1.07989	0.535
52DAP/reference	0.95523	0.405
57DAP/reference	1.06009	0.582

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.59738	0.085
27DAP/17DAP	1.13313	0.664
39DAP/27DAP	0.93198	0.54
41DAP/39DAP	1.01868	1
42DAP/41DAP	1.00489	0.892
43DAP/42DAP	1.0035	1
47DAP/43DAP	0.86032	0.439
52DAP/47DAP	0.97991	0.902
57DAP/52DAP	1.79138	0.03
57DAP/7DAP	0.7559	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.76943	0.024
17DAP/reference	1.51607	0.007
27DAP/reference	1.90326	0.014
39DAP/reference	1.3074	0.022
41DAP/reference	1.6497	0.01
42DAP/reference	1.80461	0.03
43DAP/reference	1.29591	0.256
47DAP/reference	1.53904	0.014
52DAP/reference	1.40397	0.041
57DAP/reference	0.92034	0.191

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.67927	0.029
17DAP/reference	1.28821	0.009
27DAP/reference	1.80419	0.017
39DAP/reference	1.7703	0.011
41DAP/reference	1.5855	0.013
42DAP/reference	1.6408	0.012
43DAP/reference	1.02573	0.801
47DAP/reference	1.12762	0.282
52DAP/reference	0.83967	0.259
57DAP/reference	0.85365	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.57935	0.015
17DAP/reference	1.14378	0.177
27DAP/reference	1.18104	0.057
39DAP/reference	1.03611	0.546
41DAP/reference	0.89831	0.209
42DAP/reference	0.84298	0.172
43DAP/reference	0.96348	0.523
47DAP/reference	0.99038	0.593
52DAP/reference	1.0432	0.779
57DAP/reference	1.25504	0.164

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01539	1
26DAP/20DAP	1.58443	0.334
34DAP/26DAP	1.20971	0.819
51DAP/34DAP	0.54291	0.075
52DAP/51DAP	0.80907	0.151
53DAP/52DAP	1.10045	0.502
55DAP/53DAP	1.30823	0.911
57DAP/55DAP	1.35409	0.745
62DAP/57DAP	1.17023	0.515
68DAP/62DAP	1.11172	0.858
68DAP/14DAP	1.36189	0.295

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.46415	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.04468	0.666
Mature Green Tomato/Ripe Tomato	0.99842	0.898
Immature Eggplant/Mature Eggplant	1.37506	0.076
Ripe Pepper/Ripe Tomato	0.69699	0.224
Mature Eggplant/Ripe Tomato	1.07933	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95455	0.944
1-1-2/M82	1.26898	1
12-2/M82	0.96447	0.955
12-4/M82	1.04148	1
1-3/M82	1.63765
2-1-1/M82	0.69467	0.465
2-1/M82	0.65644	0.345
2-6/M82	0.7891	1
3-2/M82	1.08303
4-1-1/M82	0.89684	1
4-1/M82	0.83413
4-3-2/M82	0.89574	1
4-3/M82	1.04883	1
5-3/M82	1.27411	0.496
6-2/M82	1.42476	1
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.92447	0.578
9-3-2/M82	1.06603	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66127
IL2-6/WTpooled	1.26608
IL7-5/WTpooled	1.36753
IL7-3/WTpooled	0.75375	1
IL12-4/WTpooled	0.78092	0.566
IL1-4/WTpooled	1.03829	1
WT/WTpooled	1.14468	0.999

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	1.09192	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07155	0.875
DC3000/delta hrp 6h	0.90775	0.95
DC3000/delta hrp 12h	0.60678	1
DC3000/delta hrp 24h	5.29668	0.025

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	0.87685	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82015	1
Exp 36h	0.76428	0.539
Exp 60h	0.83459	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0249	1
Var 0h	1.03567	1
Var 12h I row2-row1	1.46463	0.544
Var 12h NI row2-row1	0.98395	0.906
Var 36h I row2-row1	0.80144	1
Var 36h NI row2-row1	2.02361	1
Var 60h I row2-row1	1.09036
Var 60h NI row2-row1	1.10648	1
Time course 0hI-0hNI	0.99466	1
Time course 12hI-12hNI	0.78257	0.048
Time course 36hI-36hNI	0.67717	0.023
Time course 60hI-60hNI	0.38686	0.006

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)	0.99706	0.931
transgenic ySAMdc/azygous control (breaker)	1.45449	0.248
transgenic ySAMdc/azygous control (red)	0.945	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03233	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.165	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.54796	0.307
Manapal/WT (break)	0.79903	0.333
Manapal/WT (red)	1.6073	0.15