Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0486	1
27DAP/17DAP	1.14655	0.873
39DAP/27DAP	0.91483	0.631
41DAP/39DAP	1.66222	0.151
42DAP/41DAP	0.96818	1
43DAP/42DAP	1.11127	1
47DAP/43DAP	1.21524	0.527
52DAP/47DAP	1.11822	0.945
57DAP/52DAP	0.99958	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95281	0.442
17DAP/reference	1.03285	0.492
27DAP/reference	0.96671	0.595
39DAP/reference	0.94178	0.155
41DAP/reference	1.06853	0.054
42DAP/reference	0.96165	0.03
43DAP/reference	0.92197	0.163
47DAP/reference	0.85842	0.005
52DAP/reference	0.82363	0.067
57DAP/reference	0.92675	0.062

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10521	0.975
27DAP/17DAP	1.27119	0.5
39DAP/27DAP	1.17742	0.565
41DAP/39DAP	0.99251	1
42DAP/41DAP	1.19717	0.149
43DAP/42DAP	0.90013	0.482
47DAP/43DAP	1.09797	0.369
52DAP/47DAP	1.28804	0.558
57DAP/52DAP	0.9334	0.782
57DAP/7DAP	0.95349	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92053	0.27
17DAP/reference	0.89817	0.072
27DAP/reference	0.81851	0.01
39DAP/reference	0.82668	0.031
41DAP/reference	0.82293	0.076
42DAP/reference	0.76796	0.014
43DAP/reference	0.84394	0.035
47DAP/reference	0.99887	1
52DAP/reference	0.85878	0.061
57DAP/reference	0.91437	0.077

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10192	0.695
17DAP/reference	0.95738	0.389
27DAP/reference	0.85782	0.071
39DAP/reference	0.8307	0.074
41DAP/reference	0.85162	0.04
42DAP/reference	0.84255	0.035
43DAP/reference	1.00784	0.846
47DAP/reference	0.93162	0.094
52DAP/reference	0.97084	0.407
57DAP/reference	1.07788	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85202	0.068
17DAP/reference	0.92689	0.426
27DAP/reference	0.80237	0.036
39DAP/reference	0.79197	0.015
41DAP/reference	0.88275	0.055
42DAP/reference	0.82406	0.071
43DAP/reference	0.89369	0.294
47DAP/reference	0.90508	0.063
52DAP/reference	0.72003	0.174
57DAP/reference	0.68501	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98628	1
26DAP/20DAP	1.11781	0.886
34DAP/26DAP	1.45129	0.819
51DAP/34DAP	1.06647	0.785
52DAP/51DAP	1.38819	0.439
53DAP/52DAP	1.46374	0.134
55DAP/53DAP	1.15027	1
57DAP/55DAP	1.0491	0.925
62DAP/57DAP	1.21264	0.935
68DAP/62DAP	0.97112	0.769
68DAP/14DAP	1.0474	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87457	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02754	0.673
Mature Green Tomato/Ripe Tomato	1.53877	0.478
Immature Eggplant/Mature Eggplant	1.03008	1
Ripe Pepper/Ripe Tomato	0.69495	0.293
Mature Eggplant/Ripe Tomato	1.03074	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04577	1
1-1-2/M82	0.85823	0.958
12-2/M82	1.04051	1
12-4/M82	0.87871	1
1-3/M82	0.60634	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.19507	1
3-2/M82	0.92154	0.752
4-1-1/M82	0.95278	1
4-1/M82	0.68222
4-3-2/M82	1.13339	1
4-3/M82	0.82063	1
5-3/M82	0.93923	1
6-2/M82	1.0276	1
6-3/M82	1.05599	1
7-1/M82	N/A	N/A
7-2/M82	1.09922	1
9-3-2/M82	0.5266

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9389
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.17987	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.68106	0.737
IL1-4/WTpooled	0.95192
WT/WTpooled	0.96787	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	1.13974

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91466	0.664
DC3000/delta hrp 6h	1.01407	0.95
DC3000/delta hrp 12h	0.97066	1
DC3000/delta hrp 24h	1.07669	0.728

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	0.91585	1
Exp 36h	1.59116	0.409
Exp 60h	1.29179	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.13081	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.86971	0.565
Var 12h NI row2-row1	0.70199
Var 36h I row2-row1	1.2237
Var 36h NI row2-row1	1.27357	1
Var 60h I row2-row1	1.05571	1
Var 60h NI row2-row1	1.11898	1
Time course 0hI-0hNI	0.94082	0.721
Time course 12hI-12hNI	1.14159	0.773
Time course 36hI-36hNI	0.84522	0.269
Time course 60hI-60hNI	1.38027	0.08

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)	1.06589	0.3
transgenic ySAMdc/azygous control (breaker)	1.30954	0.248
transgenic ySAMdc/azygous control (red)	1.06058	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96174	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16909	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80831	0.172
Manapal/WT (break)	1.1691	0.381
Manapal/WT (red)	1.03971	1