Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.4.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04391	1
27DAP/17DAP	0.81285	0.517
39DAP/27DAP	1.07064	0.922
41DAP/39DAP	0.8615	0.482
42DAP/41DAP	1.36561	0.14
43DAP/42DAP	0.92225	0.829
47DAP/43DAP	1.21949	0.538
52DAP/47DAP	0.7962	0.498
57DAP/52DAP	1.03181	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94039	0.262
17DAP/reference	0.92142	0.342
27DAP/reference	0.93666	0.457
39DAP/reference	0.8153	0.09
41DAP/reference	0.9168	0.154
42DAP/reference	0.98588	0.44
43DAP/reference	1.01598	0.942
47DAP/reference	1.06086	0.593
52DAP/reference	1.1932	0.076
57DAP/reference	1.19354	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90745	0.277
27DAP/17DAP	1.12789	0.5
39DAP/27DAP	0.91368	0.456
41DAP/39DAP	1.18095	0.455
42DAP/41DAP	1.005	0.932
43DAP/42DAP	0.88824	0.132
47DAP/43DAP	0.92091	0.506
52DAP/47DAP	0.99312	0.941
57DAP/52DAP	1.05287	0.768
57DAP/7DAP	1.0978	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93223	0.183
17DAP/reference	0.93703	0.167
27DAP/reference	0.93326	0.076
39DAP/reference	0.89809	0.015
41DAP/reference	0.92423	0.16
42DAP/reference	0.84886	0.015
43DAP/reference	0.80687	0.015
47DAP/reference	0.93708	0.504
52DAP/reference	0.80093	0.022
57DAP/reference	0.79578	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06235	0.679
17DAP/reference	0.954	0.434
27DAP/reference	0.877	0.076
39DAP/reference	0.92654	0.257
41DAP/reference	1.24982	0.021
42DAP/reference	1.03965	0.915
43DAP/reference	0.78604	0.068
47DAP/reference	0.89	0.141
52DAP/reference	0.93777	0.327
57DAP/reference	0.69159	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06688	0.809
17DAP/reference	0.95866	0.488
27DAP/reference	0.84778	0.035
39DAP/reference	0.85563	0.043
41DAP/reference	0.89333	0.107
42DAP/reference	0.82016	0.041
43DAP/reference	0.98666	0.685
47DAP/reference	1.12828	0.12
52DAP/reference	0.91417	0.482
57DAP/reference	1.00293	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12853	0.966
26DAP/20DAP	1.17952	0.574
34DAP/26DAP	0.66877	0.256
51DAP/34DAP	1.06048	0.978
52DAP/51DAP	1.15083	0.439
53DAP/52DAP	0.78569	0.35
55DAP/53DAP	1.15188	0.534
57DAP/55DAP	0.76735	0.109
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.92591
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.52918	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.49137	0.185
Immature Eggplant/Mature Eggplant	0.44762	0.07
Ripe Pepper/Ripe Tomato	0.04313	0.224
Mature Eggplant/Ripe Tomato	0.89016	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.64911
12-2/M82	0.58037	0.74
12-4/M82	0.92993	1
1-3/M82	4.30346
2-1-1/M82	N/A	N/A
2-1/M82	0.71557
2-6/M82	N/A	N/A
3-2/M82	1.2237
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.34076	0.508
4-3/M82	1.32134	1
5-3/M82	0.87873	1
6-2/M82	3.1279
6-3/M82	0.35845
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.30666

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25289	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	2.07405
WT/WTpooled	1.21261

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	1.03174	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98192	1
DC3000/delta hrp 6h	1.27643	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.77506	0.117

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16602	0.183
DC3000 delta B/DC3000 delta AB	1.02735	0.636

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14411	1
Exp 36h	2.23447	1
Exp 60h	1.10712	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98344	1
Var 0h	1.04359	0.98
Var 12h I row2-row1	0.71347	0.363
Var 12h NI row2-row1	1.21569	0.649
Var 36h I row2-row1	0.98091	1
Var 36h NI row2-row1	0.92219	0.706
Var 60h I row2-row1	0.89429	0.306
Var 60h NI row2-row1	0.94493	0.977
Time course 0hI-0hNI	0.89257	0.376
Time course 12hI-12hNI	0.95417	0.592
Time course 36hI-36hNI	1.1319	0.19
Time course 60hI-60hNI	1.12577	0.096

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)	1.03777	0.654
transgenic ySAMdc/azygous control (breaker)	0.43027	0.142
transgenic ySAMdc/azygous control (red)	0.92535	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0461	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.48151	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94266	1
Manapal/WT (break)	0.99444	1
Manapal/WT (red)	1.03787	1