Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.7.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.54116	0.381
27DAP/17DAP	1.28969	0.744
39DAP/27DAP	1.14241	0.779
41DAP/39DAP	0.97753	0.919
42DAP/41DAP	1.22267	0.802
43DAP/42DAP	0.98784	0.932
47DAP/43DAP	1.20194	0.306
52DAP/47DAP	0.74998	0.405
57DAP/52DAP	1.13693	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95128	0.503
17DAP/reference	1.02156	0.476
27DAP/reference	0.96928	0.595
39DAP/reference	1.07998	0.615
41DAP/reference	1.11233	0.203
42DAP/reference	0.8736	0.011
43DAP/reference	1.06538	0.382
47DAP/reference	0.86033	0.014
52DAP/reference	0.71837	0.062
57DAP/reference	0.75634	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82707	0.051
27DAP/17DAP	1.05385	0.798
39DAP/27DAP	1.05699	0.654
41DAP/39DAP	1.15533	0.799
42DAP/41DAP	1.10442	0.8
43DAP/42DAP	1.11835	0.049
47DAP/43DAP	1.00954	0.957
52DAP/47DAP	1.07845	0.718
57DAP/52DAP	1.14206	0.291
57DAP/7DAP	1.00567	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94467	0.326
17DAP/reference	1.00508	1
27DAP/reference	0.94752	0.375
39DAP/reference	1.05677	1
41DAP/reference	1.1763	0.325
42DAP/reference	1.01953	1
43DAP/reference	1.03562	0.873
47DAP/reference	0.89255	0.066
52DAP/reference	1.21068	0.048
57DAP/reference	0.97571	0.443

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98359	0.706
17DAP/reference	1.01078	0.892
27DAP/reference	0.88578	0.212
39DAP/reference	0.89563	0.281
41DAP/reference	0.91422	0.164
42DAP/reference	0.8374	0.055
43DAP/reference	1.09201	0.688
47DAP/reference	0.91597	0.09
52DAP/reference	1.0752	0.223
57DAP/reference	1.30627	0.229

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97658	0.607
17DAP/reference	0.98258	0.668
27DAP/reference	0.9407	0.397
39DAP/reference	0.94868	0.36
41DAP/reference	0.94514	0.459
42DAP/reference	0.95394	0.552
43DAP/reference	1.14408	0.79
47DAP/reference	0.91897	0.306
52DAP/reference	1.05042	0.749
57DAP/reference	0.65199	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91313	0.787
26DAP/20DAP	0.89297	0.512
34DAP/26DAP	1.15659	0.819
51DAP/34DAP	0.99057	0.917
52DAP/51DAP	0.9767	1
53DAP/52DAP	0.95669	0.817
55DAP/53DAP	1.05057	1
57DAP/55DAP	1.06257	0.805
62DAP/57DAP	1.26463	0.003
68DAP/62DAP	0.75047	0.047
68DAP/14DAP	0.91825	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95729	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.0731	1
Mature Green Tomato/Ripe Tomato	0.51777	0.02
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	5.47538	1
Mature Eggplant/Ripe Tomato	0.39261

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	N/A	N/A
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	1.12673
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	1.1264

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.02247	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.15579	1
IL12-4/WTpooled	0.99737	1
IL1-4/WTpooled	1.31229
WT/WTpooled	1.08667	0.686

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	1.01561	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.42317
DC3000/delta hrp 6h	0.96919	0.95
DC3000/delta hrp 12h	1.21558	1
DC3000/delta hrp 24h	0.8406

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09001	0.476
DC3000 delta B/DC3000 delta AB	1.03513	0.593

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99135	1
Var 0h	0.83237	0.933
Var 12h I row2-row1	1.18073	0.222
Var 12h NI row2-row1	0.9741	0.906
Var 36h I row2-row1	0.98766	1
Var 36h NI row2-row1	1.11888	1
Var 60h I row2-row1	0.93467	0.306
Var 60h NI row2-row1	1.16943	0.904
Time course 0hI-0hNI	1.04937	0.867
Time course 12hI-12hNI	0.94962	0.769
Time course 36hI-36hNI	0.95489	0.142
Time course 60hI-60hNI	1.67745	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)	1.11796	0.232
transgenic ySAMdc/azygous control (breaker)	1.06479	1
transgenic ySAMdc/azygous control (red)	1.47683	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01754	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81742	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.45199	1