Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.18.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78916	0.166
27DAP/17DAP	1.23498	0.872
39DAP/27DAP	1.38619	0.768
41DAP/39DAP	1.36273	0.591
42DAP/41DAP	1.18511	0.871
43DAP/42DAP	1.20784	0.894
47DAP/43DAP	1.17274	0.926
52DAP/47DAP	2.28691	0.371
57DAP/52DAP	1.24962	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89534	0.177
17DAP/reference	0.91625	0.079
27DAP/reference	0.86953	0.019
39DAP/reference	0.90391	0.1
41DAP/reference	0.93022	0.267
42DAP/reference	0.81899	0.001
43DAP/reference	1.02175	1
47DAP/reference	1.12414	0.03
52DAP/reference	1.13974	0.128
57DAP/reference	1.03685	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05155	0.847
27DAP/17DAP	1.54699	0.353
39DAP/27DAP	0.99682	0.833
41DAP/39DAP	1.47275	0.157
42DAP/41DAP	0.78535	0.213
43DAP/42DAP	1.19302	0.585
47DAP/43DAP	1.01215	0.998
52DAP/47DAP	1.04283	1
57DAP/52DAP	1.00524	0.852
57DAP/7DAP	1.18883	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28447	0.344
17DAP/reference	1.14402	0.147
27DAP/reference	1.10028	0.246
39DAP/reference	1.11734	0.601
41DAP/reference	1.09895	0.593
42DAP/reference	1.06339	1
43DAP/reference	1.21828	0.043
47DAP/reference	1.02661	1
52DAP/reference	0.95331	0.398
57DAP/reference	1.03533	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81894	0.02
17DAP/reference	0.87192	0.116
27DAP/reference	0.85703	0.188
39DAP/reference	0.71475	0.031
41DAP/reference	0.74126	0.029
42DAP/reference	0.88562	0.135
43DAP/reference	0.84324	0.09
47DAP/reference	0.86785	0.077
52DAP/reference	0.76656	0.004
57DAP/reference	0.84598	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00874	1
17DAP/reference	0.97264	0.624
27DAP/reference	1.34048	0.072
39DAP/reference	1.20364	0.196
41DAP/reference	0.94397	0.459
42DAP/reference	0.86003	0.172
43DAP/reference	0.87021	0.246
47DAP/reference	0.90608	0.207
52DAP/reference	2.16481	0.393
57DAP/reference	1.06395	0.924

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.29023	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.9513	0.97
51DAP/34DAP	0.71263	0.341
52DAP/51DAP	0.86075	1
53DAP/52DAP	1.25316	0.057
55DAP/53DAP	0.93197	0.698
57DAP/55DAP	0.81837	0.271
62DAP/57DAP	0.9612	0.871
68DAP/62DAP	0.9893	0.914
68DAP/14DAP	1.12379	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05176	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02929
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	4.84019	0.05
Ripe Pepper/Ripe Tomato	0.15664	0.224
Mature Eggplant/Ripe Tomato	0.29661	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00864
12-2/M82	N/A	N/A
12-4/M82	0.94626
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
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	0.90372	0.419
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.42338
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	1.00373	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17367	1
IL12-4/WTpooled	1.07939	0.839
IL1-4/WTpooled	1.03423
WT/WTpooled	1.09689	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	1.39739	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08704	0.921
DC3000/delta hrp 6h	1.01046	0.95
DC3000/delta hrp 12h	1.13513	1
DC3000/delta hrp 24h	1.07176	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	1.0255

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.50553	1
Exp 36h	1.52817	0.693
Exp 60h	1.63793	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03525	1
Var 0h	1.053	0.98
Var 12h I row2-row1	1.15118	0.272
Var 12h NI row2-row1	1.33882	0.649
Var 36h I row2-row1	1.16774	0.742
Var 36h NI row2-row1	0.92628	0.743
Var 60h I row2-row1	0.74474	0.293
Var 60h NI row2-row1	0.60627	0.302
Time course 0hI-0hNI	1.15763	0.537
Time course 12hI-12hNI	1.82518	0.005
Time course 36hI-36hNI	2.48498	0.005
Time course 60hI-60hNI	5.11526	0.008

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)	1.25971	0.238
transgenic ySAMdc/azygous control (breaker)	0.56525	0.131
transgenic ySAMdc/azygous control (red)	0.82461	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91162	0.095

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.59503	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24597	0.084
Manapal/WT (break)	1.09503	1
Manapal/WT (red)	0.74676	0.315