Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.3.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.9255	0.148
27DAP/17DAP	1.46904	0.683
39DAP/27DAP	0.61592	0.293
41DAP/39DAP	1.24638	0.88
42DAP/41DAP	0.80998	1
43DAP/42DAP	1.16679	1
47DAP/43DAP	0.94187	0.699
52DAP/47DAP	1.24077	0.683
57DAP/52DAP	0.85815	0.867

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87176	0.14
17DAP/reference	0.75787	0.012
27DAP/reference	0.93895	0.339
39DAP/reference	0.7803	0.012
41DAP/reference	0.70604	0.008
42DAP/reference	0.88414	0.059
43DAP/reference	0.86033	0.015
47DAP/reference	0.95415	0.345
52DAP/reference	1.3321	0.186
57DAP/reference	1.26241	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.54786
27DAP/17DAP	0.70587
39DAP/27DAP	1.20053	0.707
41DAP/39DAP	5.06457	0.853
42DAP/41DAP	1.20775	0.926
43DAP/42DAP	1.13103	1
47DAP/43DAP	2.38869	0.664
52DAP/47DAP	0.9742	0.93
57DAP/52DAP	0.7489	0.356
57DAP/7DAP	0.81003

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31285	0.068
17DAP/reference	1.44339	0.022
27DAP/reference	1.52353	0.012
39DAP/reference	1.35148	0.059
41DAP/reference	1.41251	0.031
42DAP/reference	1.35485	0.018
43DAP/reference	1.12624	0.087
47DAP/reference	0.98735	0.671
52DAP/reference	1.14891	0.247
57DAP/reference	1.34303	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88962	0.09
17DAP/reference	0.90094	0.245
27DAP/reference	0.99839	0.711
39DAP/reference	1.12732	0.571
41DAP/reference	0.9625	0.34
42DAP/reference	1.00112	0.723
43DAP/reference	0.89294	0.175
47DAP/reference	0.8643	0.043
52DAP/reference	0.96072	0.38
57DAP/reference	0.88187	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15262	0.338
17DAP/reference	1.10535	0.62
27DAP/reference	1.62895	0.022
39DAP/reference	1.27224	0.075
41DAP/reference	1.46954	0.035
42DAP/reference	1.22026	0.15
43DAP/reference	1.22215	0.076
47DAP/reference	0.92105	0.125
52DAP/reference	1.22641	0.22
57DAP/reference	1.43641	0.129

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3644	0.966
26DAP/20DAP	1.23784	0.437
34DAP/26DAP	1.73613	0.819
51DAP/34DAP	0.67534
52DAP/51DAP	0.60624
53DAP/52DAP	1.21413	0.91
55DAP/53DAP	0.96089	0.709
57DAP/55DAP	0.35928	0.01
62DAP/57DAP	1.12982	1
68DAP/62DAP	3.98586	0.015
68DAP/14DAP	2.03829	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.19428	0.059
Mature Green Tomato/Ripe Tomato	1.11357	0.881
Immature Eggplant/Mature Eggplant	2.45651	0.198
Ripe Pepper/Ripe Tomato	0.78813	1
Mature Eggplant/Ripe Tomato	1.53498	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.86252
1-1-2/M82	1.09236
12-2/M82	1.01423
12-4/M82	0.93019
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	N/A	N/A
4-3/M82	1.21094
5-3/M82	0.92779
6-2/M82	2.52701
6-3/M82	N/A	N/A
7-1/M82	0.91638
7-2/M82	1.26527
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17338	0.277
IL2-6/WTpooled	1.05355	0.659
IL7-5/WTpooled	1.05105	1
IL7-3/WTpooled	1.02708	1
IL12-4/WTpooled	1.03985	0.737
IL1-4/WTpooled	0.87019	0.699
WT/WTpooled	1.03074	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02123	0.921
DC3000/delta hrp 6h	1.43396	1
DC3000/delta hrp 12h	1.02647	1
DC3000/delta hrp 24h	1.11415	0.243

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	1.08002	0.254
Exp 36h	1.34298	0.693
Exp 60h	1.2322	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	0.79337
Time course 60hI-60hNI	N/A	N/A

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)	0.94076	0.409
transgenic ySAMdc/azygous control (breaker)	0.39564	0.142
transgenic ySAMdc/azygous control (red)	1.22801	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01465	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73367	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98685	1
Manapal/WT (break)	0.74186	1
Manapal/WT (red)	1.07355	1