Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6909	0.073
27DAP/17DAP	1.15982	0.845
39DAP/27DAP	0.96691	0.733
41DAP/39DAP	1.03518	0.883
42DAP/41DAP	0.71467	0.774
43DAP/42DAP	1.2566	1
47DAP/43DAP	0.73192	0.251
52DAP/47DAP	1.05989	0.854
57DAP/52DAP	0.80691	0.673

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90101	0.2
17DAP/reference	1.09362	0.089
27DAP/reference	1.0252	0.981
39DAP/reference	0.90096	0.342
41DAP/reference	0.97365	0.434
42DAP/reference	0.86881	0.007
43DAP/reference	1.0368	0.617
47DAP/reference	0.88586	0.008
52DAP/reference	0.88593	0.102
57DAP/reference	0.93698	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18747	0.525
27DAP/17DAP	1.21459	0.37
39DAP/27DAP	1.25059	0.514
41DAP/39DAP	0.98635	1
42DAP/41DAP	1.15421	0.316
43DAP/42DAP	0.74894	0.029
47DAP/43DAP	1.07742	0.889
52DAP/47DAP	0.99915	0.982
57DAP/52DAP	0.90831	0.612
57DAP/7DAP	1.32196	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87396	0.224
17DAP/reference	1.23987	0.822
27DAP/reference	1.28321	0.246
39DAP/reference	1.08006	0.333
41DAP/reference	1.03206	0.918
42DAP/reference	1.12696	0.233
43DAP/reference	0.89116	0.126
47DAP/reference	1.03125	1
52DAP/reference	1.17672	0.043
57DAP/reference	1.29434	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11465	0.226
17DAP/reference	0.96528	0.487
27DAP/reference	0.88362	0.111
39DAP/reference	0.88743	0.095
41DAP/reference	0.8577	0.016
42DAP/reference	0.78575	0.012
43DAP/reference	0.88061	0.102
47DAP/reference	0.86456	0.055
52DAP/reference	1.06678	0.322
57DAP/reference	1.0696	0.345

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08871	0.244
17DAP/reference	0.91264	0.364
27DAP/reference	1.29385	0.51
39DAP/reference	1.07328	0.451
41DAP/reference	1.46847	0.045
42DAP/reference	1.14611	0.818
43DAP/reference	1.31338	0.314
47DAP/reference	0.98903	0.558
52DAP/reference	1.17546	0.517
57DAP/reference	0.93616	0.353

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12488	0.966
26DAP/20DAP	0.81549	0.317
34DAP/26DAP	0.80203	0.329
51DAP/34DAP	1.01197	0.883
52DAP/51DAP	0.68111	0.151
53DAP/52DAP	1.08815	0.961
55DAP/53DAP	0.96533	0.784
57DAP/55DAP	0.9894	0.911
62DAP/57DAP	1.09984	0.678
68DAP/62DAP	1.30938	0.491
68DAP/14DAP	1.14836	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85308	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.87095	0.018
Immature Eggplant/Mature Eggplant	4.10622	0.165
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	N/A	N/A
1-1-2/M82	N/A	N/A
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	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	N/A	N/A
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	1.0259
IL2-6/WTpooled	1.01788
IL7-5/WTpooled	1.01595	1
IL7-3/WTpooled	1.106
IL12-4/WTpooled	0.80581	0.543
IL1-4/WTpooled	1.08489	1
WT/WTpooled	0.83829	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	1.39691	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86659	0.502
DC3000/delta hrp 6h	1.37423	0.777
DC3000/delta hrp 12h	1.09246	1
DC3000/delta hrp 24h	0.76847	0.067

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.45331
DC3000 delta B/DC3000 delta AB	0.16444

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87226	1
Exp 36h	1.02416	0.943
Exp 60h	1.21439	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01696	1
Var 0h	1.06483	0.98
Var 12h I row2-row1	0.92522	0.467
Var 12h NI row2-row1	1.10654	1
Var 36h I row2-row1	0.68715	0.805
Var 36h NI row2-row1	2.07327	1
Var 60h I row2-row1	0.99405	1
Var 60h NI row2-row1	1.28093	0.904
Time course 0hI-0hNI	0.97695	0.873
Time course 12hI-12hNI	1.01067	0.861
Time course 36hI-36hNI	0.89269	0.112
Time course 60hI-60hNI	0.30329	0.006

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)	0.94667	0.454
transgenic ySAMdc/azygous control (breaker)	1.1269	0.248
transgenic ySAMdc/azygous control (red)	0.96441	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04048	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01128	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92405	1
Manapal/WT (break)	1.19194	1
Manapal/WT (red)	2.34661	0.133