Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82732	0.318
27DAP/17DAP	2.2223	0.319
39DAP/27DAP	0.73595	0.399
41DAP/39DAP	1.55763	0.293
42DAP/41DAP	1.11737	0.974
43DAP/42DAP	0.98402	0.925
47DAP/43DAP	0.85993	0.54
52DAP/47DAP	1.32437	0.403
57DAP/52DAP	1.14162	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21452	0.093
17DAP/reference	0.96893	0.419
27DAP/reference	1.01627	1
39DAP/reference	1.0408	0.679
41DAP/reference	1.02159	0.667
42DAP/reference	0.9624	0.196
43DAP/reference	0.97525	0.675
47DAP/reference	0.9129	0.011
52DAP/reference	0.87891	0.084
57DAP/reference	0.90677	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05749	0.482
27DAP/17DAP	0.95624	0.821
39DAP/27DAP	1.01566	0.751
41DAP/39DAP	1.07483	0.65
42DAP/41DAP	0.97064	0.708
43DAP/42DAP	1.00788	0.746
47DAP/43DAP	0.99367	0.983
52DAP/47DAP	1.14441	0.573
57DAP/52DAP	0.9788	0.753
57DAP/7DAP	1.18624	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95335	0.071
17DAP/reference	0.90458	0.015
27DAP/reference	0.90763	0.011
39DAP/reference	0.9628	0.049
41DAP/reference	0.98591	0.565
42DAP/reference	0.8668	0.01
43DAP/reference	0.89537	0.166
47DAP/reference	0.82356	0.293
52DAP/reference	0.87087	0.179
57DAP/reference	0.88171	0.105

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06067	0.384
17DAP/reference	1.19889	0.018
27DAP/reference	1.1124	0.23
39DAP/reference	1.04069	0.502
41DAP/reference	1.10277	0.344
42DAP/reference	0.99432	0.655
43DAP/reference	1.23914	0.027
47DAP/reference	0.95087	0.173
52DAP/reference	1.04739	0.322
57DAP/reference	1.11935	0.101

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89486	0.049
17DAP/reference	0.96721	0.381
27DAP/reference	0.92791	0.056
39DAP/reference	0.92926	0.069
41DAP/reference	1.0061	1
42DAP/reference	0.99182	0.816
43DAP/reference	0.95031	0.179
47DAP/reference	0.8749	0.01
52DAP/reference	0.88974	0.158
57DAP/reference	0.85457	0.069

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9699	1
26DAP/20DAP	0.88267	0.317
34DAP/26DAP	1.04482	1
51DAP/34DAP	1.04458	0.785
52DAP/51DAP	1.07849	0.42
53DAP/52DAP	0.99816	1
55DAP/53DAP	1.07459	0.848
57DAP/55DAP	1.06623	0.997
62DAP/57DAP	0.9427	0.871
68DAP/62DAP	0.98267	0.81
68DAP/14DAP	1.09583	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01721	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.03698	1
Mature Green Tomato/Ripe Tomato	1.05754	0.835
Immature Eggplant/Mature Eggplant	0.42445	0.07
Ripe Pepper/Ripe Tomato	1.11319	1
Mature Eggplant/Ripe Tomato	1.01031	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04917	1
1-1-2/M82	1.04909	0.977
12-2/M82	1.16747	0.61
12-4/M82	0.99533	1
1-3/M82	0.98462	1
2-1-1/M82	1.08095	0.457
2-1/M82	N/A	N/A
2-6/M82	1.08187	0.695
3-2/M82	1.02196
4-1-1/M82	1.17749	1
4-1/M82	0.88243	1
4-3-2/M82	0.9852	1
4-3/M82	1.06172	1
5-3/M82	0.73296	0.447
6-2/M82	1.1762
6-3/M82	0.96973	1
7-1/M82	0.96697
7-2/M82	1.10001	1
9-3-2/M82	0.83211

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8588	1
IL2-6/WTpooled	0.89803	0.383
IL7-5/WTpooled	0.24927	1
IL7-3/WTpooled	1.10328	1
IL12-4/WTpooled	1.27752	0.839
IL1-4/WTpooled	1.08244	1
WT/WTpooled	0.9966	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	0.89237	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0645	0.921
DC3000/delta hrp 6h	1.29013	1
DC3000/delta hrp 12h	1.07313	1
DC3000/delta hrp 24h	0.96321	0.711

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10183	0.081
DC3000 delta B/DC3000 delta AB	1.10019	0.332

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10598	1
Exp 36h	0.76373	0.589
Exp 60h	0.70506	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98329	1
Var 0h	0.70759	0.374
Var 12h I row2-row1	1.22483	0.379
Var 12h NI row2-row1	0.99973	1
Var 36h I row2-row1	0.97214	1
Var 36h NI row2-row1	0.88289	0.522
Var 60h I row2-row1	1.13657	1
Var 60h NI row2-row1	1.12695	0.904
Time course 0hI-0hNI	1.0874	0.719
Time course 12hI-12hNI	1.03834	0.703
Time course 36hI-36hNI	1.02224	0.975
Time course 60hI-60hNI	1.22025	0.069

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)	0.69549	0.246
transgenic ySAMdc/azygous control (breaker)	0.95934	1
transgenic ySAMdc/azygous control (red)	1.04796	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96478	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8033	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23514	0.105
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.85921	0.187