Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.13.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87345	0.522
27DAP/17DAP	0.95618	0.784
39DAP/27DAP	0.71722	0.286
41DAP/39DAP	1.7455	0.318
42DAP/41DAP	1.27064	0.898
43DAP/42DAP	0.94691	0.89
47DAP/43DAP	0.91172	0.667
52DAP/47DAP	1.39204	0.445
57DAP/52DAP	0.9341	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92804	0.211
17DAP/reference	1.00159	1
27DAP/reference	0.97159	0.538
39DAP/reference	0.90736	0.437
41DAP/reference	0.97956	0.667
42DAP/reference	0.86517	0.01
43DAP/reference	1.04184	0.596
47DAP/reference	0.90172	0.008
52DAP/reference	0.78221	0.102
57DAP/reference	0.84882	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93256	0.496
27DAP/17DAP	1.10361	0.817
39DAP/27DAP	1.10748	0.496
41DAP/39DAP	1.03976	1
42DAP/41DAP	1.162	0.257
43DAP/42DAP	1.02432	0.788
47DAP/43DAP	1.27191	0.133
52DAP/47DAP	0.9583	0.876
57DAP/52DAP	0.9886	0.813
57DAP/7DAP	1.20369	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88709	0.183
17DAP/reference	0.82776	0.012
27DAP/reference	0.91028	0.135
39DAP/reference	0.94729	0.039
41DAP/reference	0.902	0.043
42DAP/reference	0.87787	0.023
43DAP/reference	0.85657	0.014
47DAP/reference	0.86561	0.079
52DAP/reference	0.85833	0.09
57DAP/reference	0.86908	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01961	0.933
17DAP/reference	0.92285	0.182
27DAP/reference	0.80012	0.071
39DAP/reference	0.77543	0.054
41DAP/reference	0.77344	0.06
42DAP/reference	0.84285	0.15
43DAP/reference	0.99359	0.706
47DAP/reference	1.00205	0.73
52DAP/reference	0.92761	0.156
57DAP/reference	1.15057	0.477

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93922	0.23
17DAP/reference	1.00649	0.886
27DAP/reference	0.90975	0.133
39DAP/reference	0.90205	0.037
41DAP/reference	0.86215	0.026
42DAP/reference	0.73017	0.059
43DAP/reference	0.85031	0.171
47DAP/reference	0.99343	0.574
52DAP/reference	0.88297	0.22
57DAP/reference	0.53192	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02101	1
26DAP/20DAP	0.99363	1
34DAP/26DAP	1.00666	1
51DAP/34DAP	0.86734	0.174
52DAP/51DAP	0.99687	1
53DAP/52DAP	1.05563	0.797
55DAP/53DAP	0.95286	0.592
57DAP/55DAP	1.00368	1
62DAP/57DAP	1.14032	0.515
68DAP/62DAP	0.97175	0.787
68DAP/14DAP	1.06134	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87223	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.99218	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9668	0.934
1-1-2/M82	0.93304	1
12-2/M82	1.14282	0.61
12-4/M82	0.83143	1
1-3/M82	0.79386	0.441
2-1-1/M82	0.93332	1
2-1/M82	1.26142
2-6/M82	1.19223	0.505
3-2/M82	0.88763	1
4-1-1/M82	1.08159	1
4-1/M82	0.75933	1
4-3-2/M82	0.93856	1
4-3/M82	0.79822
5-3/M82	0.89939	0.642
6-2/M82	0.82464	1
6-3/M82	0.83543	0.68
7-1/M82	0.96285
7-2/M82	0.99601	1
9-3-2/M82	0.82004	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78259	0.243
IL2-6/WTpooled	1.1786	0.395
IL7-5/WTpooled	0.43258	1
IL7-3/WTpooled	0.83845	0.418
IL12-4/WTpooled	1.12007	0.891
IL1-4/WTpooled	1.08514	1
WT/WTpooled	1.06099	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	0.84851	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06182	0.921
DC3000/delta hrp 6h	0.62818	0.914
DC3000/delta hrp 12h	1.25221	1
DC3000/delta hrp 24h	0.97493	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27307	0.034
DC3000 delta B/DC3000 delta AB	1.01497	0.714

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	0.99118	1
Var 0h	0.95208	1
Var 12h I row2-row1	1.12243	0.406
Var 12h NI row2-row1	0.88007	0.627
Var 36h I row2-row1	0.90808	0.805
Var 36h NI row2-row1	0.88843	0.549
Var 60h I row2-row1	1.56653	1
Var 60h NI row2-row1	1.26398	0.904
Time course 0hI-0hNI	1.11203	0.764
Time course 12hI-12hNI	1.08795	0.58
Time course 36hI-36hNI	0.89928	0.136
Time course 60hI-60hNI	1.13418	0.137

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)	1.0395	0.921
transgenic ySAMdc/azygous control (breaker)	1.1555	0.248
transgenic ySAMdc/azygous control (red)	1.0571	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02789	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08713	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93197	1
Manapal/WT (break)	0.99185	1
Manapal/WT (red)	0.76788	0.181