Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.2.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96143	0.743
27DAP/17DAP	0.6305	0.08
39DAP/27DAP	0.92854	0.62
41DAP/39DAP	1.12737	0.386
42DAP/41DAP	1.60105	0.157
43DAP/42DAP	1.83288	0.027
47DAP/43DAP	0.71996	0.203
52DAP/47DAP	1.32097	0.891
57DAP/52DAP	0.85757	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04708	1
17DAP/reference	1.03363	0.442
27DAP/reference	1.0155	0.831
39DAP/reference	0.96726	0.5
41DAP/reference	1.04064	0.287
42DAP/reference	0.97963	0.315
43DAP/reference	1.02609	0.73
47DAP/reference	0.97223	0.258
52DAP/reference	0.88715	0.162
57DAP/reference	0.96371	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6183	0.334
27DAP/17DAP	0.73705	0.241
39DAP/27DAP	2.18445	0.048
41DAP/39DAP	0.57093	0.038
42DAP/41DAP	3.19294	0.018
43DAP/42DAP	10.8424	0.013
47DAP/43DAP	0.67189	0.009
52DAP/47DAP	0.50053	0.053
57DAP/52DAP	0.76068	0.264
57DAP/7DAP	1.67522	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02998	0.55
17DAP/reference	1.44018	0.016
27DAP/reference	1.45111	0.008
39DAP/reference	1.4601	0.026
41DAP/reference	1.32357	0.113
42DAP/reference	1.5	0.076
43DAP/reference	1.72855	0.007
47DAP/reference	1.07106	1
52DAP/reference	1.47378	0.046
57DAP/reference	1.56921	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93535	0.374
17DAP/reference	0.9635	0.347
27DAP/reference	0.84928	0.084
39DAP/reference	0.84462	0.012
41DAP/reference	0.86641	0.042
42DAP/reference	0.92416	0.15
43DAP/reference	0.83115	0.007
47DAP/reference	0.87449	0.02
52DAP/reference	0.91456	0.034
57DAP/reference	0.8868	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42169	0.035
17DAP/reference	1.22223	0.283
27DAP/reference	1.36624	0.024
39DAP/reference	1.44347	0.046
41DAP/reference	1.27722	0.162
42DAP/reference	1.31001	0.138
43DAP/reference	1.12379	0.84
47DAP/reference	0.88077	0.038
52DAP/reference	1.42894	0.155
57DAP/reference	1.03543	0.828

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14071	0.56
26DAP/20DAP	0.8973	1
34DAP/26DAP	0.99089	1
51DAP/34DAP	0.92373	0.674
52DAP/51DAP	0.89234	1
53DAP/52DAP	0.90168	0.544
55DAP/53DAP	0.95229	0.686
57DAP/55DAP	1.04929	0.915
62DAP/57DAP	1.42716	0.393
68DAP/62DAP	1.00546	1
68DAP/14DAP	1.05779	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.21419	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81443	0.286
Mature Green Tomato/Ripe Tomato	0.68325	0.072
Immature Eggplant/Mature Eggplant	0.66839	0.081
Ripe Pepper/Ripe Tomato	2.02192	0.258
Mature Eggplant/Ripe Tomato	3.12904	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.38929
1-1-2/M82	1.17064
12-2/M82	0.92862
12-4/M82	1.52568	1
1-3/M82	N/A	N/A
2-1-1/M82	0.69597
2-1/M82	1.02554
2-6/M82	0.95327	1
3-2/M82	1.27417
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	1.05765	1
5-3/M82	1.22643	0.572
6-2/M82	0.75634
6-3/M82	1.04114	1
7-1/M82	0.81536	1
7-2/M82	1.19706
9-3-2/M82	1.51593	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88634	0.243
IL2-6/WTpooled	0.97678	1
IL7-5/WTpooled	1.30924	1
IL7-3/WTpooled	0.86238	0.418
IL12-4/WTpooled	0.91988	0.566
IL1-4/WTpooled	1.05302	1
WT/WTpooled	0.98272	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	1.27723	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93234	1
DC3000/delta hrp 6h	1.07308	1
DC3000/delta hrp 12h	0.6927	1
DC3000/delta hrp 24h	0.59989	0.034

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	0.35231	0.08

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90478	1
Exp 36h	0.67274	0.41
Exp 60h	0.68708	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99507	1
Var 0h	0.93373	0.933
Var 12h I row2-row1	0.90142
Var 12h NI row2-row1	0.85723	0.494
Var 36h I row2-row1	1.20928	1
Var 36h NI row2-row1	1.08062	1
Var 60h I row2-row1	1.02632	1
Var 60h NI row2-row1	0.97172	1
Time course 0hI-0hNI	0.9223	0.339
Time course 12hI-12hNI	0.94062	0.586
Time course 36hI-36hNI	0.78976	0.023
Time course 60hI-60hNI	0.36343	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)	1.04809	0.612
transgenic ySAMdc/azygous control (breaker)	1.28314	0.165
transgenic ySAMdc/azygous control (red)	1.05389	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.86552	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.01764	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.22237	0.087
Manapal/WT (break)	1.6545	0.183
Manapal/WT (red)	1.3942	0.413