Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76209	0.238
27DAP/17DAP	0.87898	0.717
39DAP/27DAP	0.88365	0.376
41DAP/39DAP	0.90343	0.636
42DAP/41DAP	0.90761	1
43DAP/42DAP	1.13579	0.962
47DAP/43DAP	0.81651	0.455
52DAP/47DAP	1.26795	0.691
57DAP/52DAP	1.11308	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86021	0.075
17DAP/reference	0.78035	0.008
27DAP/reference	1.00338	0.885
39DAP/reference	0.81266	0.016
41DAP/reference	0.7453	0.009
42DAP/reference	0.98224	0.398
43DAP/reference	0.86924	0.061
47DAP/reference	0.96624	0.366
52DAP/reference	1.19875	0.158
57DAP/reference	1.29001	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18097	0.379
27DAP/17DAP	0.80322	0.58
39DAP/27DAP	1.1202	0.596
41DAP/39DAP	1.2199	0.439
42DAP/41DAP	1.10834	0.783
43DAP/42DAP	0.90389	0.431
47DAP/43DAP	1.13497	0.601
52DAP/47DAP	0.92719	0.797
57DAP/52DAP	1.23911	0.154
57DAP/7DAP	0.71307	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15341	0.193
17DAP/reference	1.21918	0.112
27DAP/reference	0.95239	0.375
39DAP/reference	1.00945	1
41DAP/reference	1.15297	0.191
42DAP/reference	1.14342	0.233
43DAP/reference	1.08944	0.226
47DAP/reference	1.26657	0.022
52DAP/reference	1.03974	0.941
57DAP/reference	1.23542	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83076	0.129
17DAP/reference	0.72959	0.018
27DAP/reference	0.97159	0.501
39DAP/reference	1.17717	0.424
41DAP/reference	1.37704	0.062
42DAP/reference	0.98007	0.534
43DAP/reference	0.97592	0.552
47DAP/reference	0.9838	0.559
52DAP/reference	0.98755	0.576
57DAP/reference	0.97867	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14639	0.218
17DAP/reference	0.9597	0.537
27DAP/reference	1.07959	0.51
39DAP/reference	1.04445	0.733
41DAP/reference	1.00916	1
42DAP/reference	1.16936	0.167
43DAP/reference	1.02765	0.803
47DAP/reference	0.90262	0.168
52DAP/reference	0.81392	0.189
57DAP/reference	1.49671	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96732	1
26DAP/20DAP	1.34532	0.322
34DAP/26DAP	0.72476	0.565
51DAP/34DAP	1.10063	0.84
52DAP/51DAP	0.79895	1
53DAP/52DAP	1.09361	0.858
55DAP/53DAP	1.0152	0.894
57DAP/55DAP	1.11664	0.944
62DAP/57DAP	3.55911	0.833
68DAP/62DAP	1.65288	0.448
68DAP/14DAP	2.05867	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91007	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91603	0.491
Mature Green Tomato/Ripe Tomato	0.86943	0.347
Immature Eggplant/Mature Eggplant	1.19069	0.061
Ripe Pepper/Ripe Tomato	0.87552	0.293
Mature Eggplant/Ripe Tomato	1.62376	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.96192	1
12-2/M82	N/A	N/A
12-4/M82	0.62816	0.358
1-3/M82	2.86755
2-1-1/M82	0.61435
2-1/M82	0.92054	0.74
2-6/M82	0.76258	0.501
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	0.92377
4-3/M82	1.0366	1
5-3/M82	1.39229	1
6-2/M82	N/A	N/A
6-3/M82	1.32178	1
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.92489	1
IL1-4/WTpooled	1.0364	0.426
WT/WTpooled	0.81027	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	0.91403	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07304	0.921
DC3000/delta hrp 6h	0.97781	0.95
DC3000/delta hrp 12h	0.91495	1
DC3000/delta hrp 24h	1.08381	0.347

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	1.11084	0.443

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.73317	1
Exp 36h	0.92563	0.82
Exp 60h	0.97941	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97698	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.77829
Var 12h NI row2-row1	1.2666
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.28577
Var 60h NI row2-row1	0.7717	0.292
Time course 0hI-0hNI	0.83826	0.111
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	0.92138
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)	0.93837	0.309
transgenic ySAMdc/azygous control (breaker)	0.87229	0.251
transgenic ySAMdc/azygous control (red)	0.9617	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16984	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96951	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10525	0.14
Manapal/WT (break)	1.02316	1
Manapal/WT (red)	1.22544	0.413