Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.11.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16175	0.755
27DAP/17DAP	1.6677	0.483
39DAP/27DAP	1.19768	0.894
41DAP/39DAP	0.9808	0.949
42DAP/41DAP	0.92505	1
43DAP/42DAP	1.01391	0.937
47DAP/43DAP	1.23025	0.229
52DAP/47DAP	1.07342	0.949
57DAP/52DAP	1.27865	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87582	0.217
17DAP/reference	0.98347	0.737
27DAP/reference	1.17527	0.339
39DAP/reference	0.93521	0.342
41DAP/reference	0.9971	1
42DAP/reference	1.04255	0.812
43DAP/reference	1.27838	0.064
47DAP/reference	1.16089	0.541
52DAP/reference	1.01314	0.768
57DAP/reference	1.00547	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09215	0.87
27DAP/17DAP	1.31594	0.863
39DAP/27DAP	1.00593	0.932
41DAP/39DAP	1.20292	0.719
42DAP/41DAP	0.88076	0.356
43DAP/42DAP	1.1232	0.212
47DAP/43DAP	0.73867	0.108
52DAP/47DAP	1.1068	0.819
57DAP/52DAP	1.40175	0.79
57DAP/7DAP	2.32172	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18944	0.213
17DAP/reference	1.13226	0.328
27DAP/reference	0.99261	0.614
39DAP/reference	0.99244	0.64
41DAP/reference	1.19111	0.46
42DAP/reference	0.97287	0.436
43DAP/reference	0.97281	0.44
47DAP/reference	1.0621	1
52DAP/reference	1.00103	0.621
57DAP/reference	1.16646	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17895	0.23
17DAP/reference	1.24656	0.098
27DAP/reference	1.23267	0.345
39DAP/reference	0.90296	0.202
41DAP/reference	0.91233	0.25
42DAP/reference	0.83924	0.108
43DAP/reference	1.10295	0.688
47DAP/reference	0.93492	0.302
52DAP/reference	1.03883	0.938
57DAP/reference	1.06198	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90511	0.214
17DAP/reference	1.12414	0.572
27DAP/reference	0.95808	0.539
39DAP/reference	1.07127	0.546
41DAP/reference	1.06478	0.867
42DAP/reference	1.0889	0.635
43DAP/reference	0.99636	0.796
47DAP/reference	1.18055	0.018
52DAP/reference	1.58	0.428
57DAP/reference	0.81136	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.51461	0.586
26DAP/20DAP	0.84259	1
34DAP/26DAP	1.15364	1
51DAP/34DAP	0.94909	0.737
52DAP/51DAP	1.15123	0.848
53DAP/52DAP	1.17771	0.25
55DAP/53DAP	0.9097	0.515
57DAP/55DAP	0.94961	0.789
62DAP/57DAP	0.96404	0.994
68DAP/62DAP	0.72175	0.227
68DAP/14DAP	1.01314	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.40529	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92679	0.256
Immature Eggplant/Mature Eggplant	1.90352
Ripe Pepper/Ripe Tomato	1.16594	1
Mature Eggplant/Ripe Tomato	0.97204	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.97156
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	1.23239
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	N/A	N/A
5-3/M82	1.13185	0.378
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
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	1.03946	0.493
IL2-6/WTpooled	1.15769	0.788
IL7-5/WTpooled	0.79603	1
IL7-3/WTpooled	1.06439	1
IL12-4/WTpooled	1.05588	0.891
IL1-4/WTpooled	0.941	0.834
WT/WTpooled	1.077	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	0.9363	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10381	0.921
DC3000/delta hrp 6h	1.07974	1
DC3000/delta hrp 12h	1.00148	1
DC3000/delta hrp 24h	1.09878	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	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	1.039	1
Var 0h	0.9266	1
Var 12h I row2-row1	1.09433	0.379
Var 12h NI row2-row1	1.08403	0.34
Var 36h I row2-row1	1.12305	0.368
Var 36h NI row2-row1	0.93065	0.791
Var 60h I row2-row1	0.96611	0.952
Var 60h NI row2-row1	0.80788	0.932
Time course 0hI-0hNI	1.04072	0.95
Time course 12hI-12hNI	0.95652	0.701
Time course 36hI-36hNI	1.12672	0.166
Time course 60hI-60hNI	2.0119	0.009

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)	0.9191	0.454
transgenic ySAMdc/azygous control (breaker)	1.37209	0.166
transgenic ySAMdc/azygous control (red)	0.95973	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16169	0.036

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8177	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03855	1
Manapal/WT (break)	0.87807	1
Manapal/WT (red)	0.94539	0.728