Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13476	0.602
27DAP/17DAP	1.0807	0.92
39DAP/27DAP	0.78434	0.414
41DAP/39DAP	1.15357	0.575
42DAP/41DAP	0.99408	1
43DAP/42DAP	1.15735	0.993
47DAP/43DAP	1.64572	0.595
52DAP/47DAP	0.97793	0.89
57DAP/52DAP	1.1347	0.941

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	0.34675
27DAP/reference	0.88943	0.525
39DAP/reference	0.79867	0.565
41DAP/reference	0.56269
42DAP/reference	0.72596
43DAP/reference	N/A	N/A
47DAP/reference	1.11326	1
52DAP/reference	1.46172	0.654
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91738	0.388
27DAP/17DAP	1.029	0.942
39DAP/27DAP	1.06235	0.499
41DAP/39DAP	0.98	0.986
42DAP/41DAP	1.00002	0.887
43DAP/42DAP	1.01255	1
47DAP/43DAP	1.08311	0.492
52DAP/47DAP	1.16107	0.549
57DAP/52DAP	1.06197	0.745
57DAP/7DAP	1.78026	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04094	0.705
17DAP/reference	0.87176	0.108
27DAP/reference	1.43185	0.018
39DAP/reference	1.09795	0.74
41DAP/reference	1.47445	0.018
42DAP/reference	2.14043	0.016
43DAP/reference	2.29095	0.006
47DAP/reference	1.41663	0.404
52DAP/reference	1.66948	0.008
57DAP/reference	2.48571	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94156	0.592
17DAP/reference	1.07683	0.303
27DAP/reference	0.83149	0.212
39DAP/reference	0.72038	0.009
41DAP/reference	0.91211	0.34
42DAP/reference	1.03325	0.934
43DAP/reference	1.04915	1
47DAP/reference	1.12851	0.343
52DAP/reference	0.85408	0.28
57DAP/reference	1.14873	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8668	0.169
17DAP/reference	1.03118	0.778
27DAP/reference	1.05062	0.552
39DAP/reference	1.07968	0.218
41DAP/reference	0.70366	0.019
42DAP/reference	0.84687	0.059
43DAP/reference	0.96055	0.484
47DAP/reference	0.95737	0.434
52DAP/reference	1.1849	0.176
57DAP/reference	0.88658	0.104

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99777	1
26DAP/20DAP	0.98151	1
34DAP/26DAP	1.04639	0.542
51DAP/34DAP	0.91707	0.428
52DAP/51DAP	1.1048	0.758
53DAP/52DAP	1.22018	0.594
55DAP/53DAP	0.91792	0.648
57DAP/55DAP	1.31392	0.393
62DAP/57DAP	1.0534	0.8
68DAP/62DAP	0.95923	0.81
68DAP/14DAP	0.692	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68171	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92036	0.569
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	0.89952	0.944
1-1-2/M82	0.95118	1
12-2/M82	2.87402	1
12-4/M82	1.15847	1
1-3/M82	0.80336	0.378
2-1-1/M82	1.13112	0.403
2-1/M82	N/A	N/A
2-6/M82	0.87877	1
3-2/M82	0.83809
4-1-1/M82	1.20115	1
4-1/M82	1.28232
4-3-2/M82	0.87679
4-3/M82	1.13033	1
5-3/M82	0.97317	1
6-2/M82	0.83131	1
6-3/M82	1.12804	1
7-1/M82	1.02141	1
7-2/M82	0.91278	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93354	1
IL2-6/WTpooled	0.88139	1
IL7-5/WTpooled	0.83483	1
IL7-3/WTpooled	1.06157	1
IL12-4/WTpooled	1.10031	0.553
IL1-4/WTpooled	0.97038	1
WT/WTpooled	0.98861	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	1.09883	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05761	0.921
DC3000/delta hrp 6h	0.80972
DC3000/delta hrp 12h	1.163	1
DC3000/delta hrp 24h	0.92111	0.447

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	1.01433	0.726

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96538	1
Exp 36h	N/A	N/A
Exp 60h	1.57906	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99443	1
Var 0h	0.83174	0.261
Var 12h I row2-row1	1.21369	0.296
Var 12h NI row2-row1	0.89874	0.713
Var 36h I row2-row1	0.75445	0.575
Var 36h NI row2-row1	0.92401	0.584
Var 60h I row2-row1	1.218	0.562
Var 60h NI row2-row1	1.01171	1
Time course 0hI-0hNI	1.11616	0.574
Time course 12hI-12hNI	1.01999	0.81
Time course 36hI-36hNI	0.95158	0.45
Time course 60hI-60hNI	1.65751	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)	1.38969	0.798
transgenic ySAMdc/azygous control (breaker)	1.81202	0.165
transgenic ySAMdc/azygous control (red)	1.06269	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92619	1
Manapal/WT (break)	0.90081	0.333
Manapal/WT (red)	1.06002	1