Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.9.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21695	0.512
27DAP/17DAP	1.00916	1
39DAP/27DAP	1.13373	0.876
41DAP/39DAP	1.1954	0.603
42DAP/41DAP	0.90136	1
43DAP/42DAP	1.06323	1
47DAP/43DAP	1.12227	0.842
52DAP/47DAP	0.92716	0.754
57DAP/52DAP	0.94405	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01218	1
17DAP/reference	0.97795	0.567
27DAP/reference	0.93476	0.101
39DAP/reference	1.06449	0.343
41DAP/reference	1.00537	0.91
42DAP/reference	1.02434	0.366
43DAP/reference	1.0255	0.518
47DAP/reference	0.96896	0.191
52DAP/reference	0.89503	0.032
57DAP/reference	0.8569	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9374	0.542
27DAP/17DAP	1.15925	0.617
39DAP/27DAP	1.01901	0.751
41DAP/39DAP	0.96258	0.893
42DAP/41DAP	1.0774	0.635
43DAP/42DAP	1.00265	1
47DAP/43DAP	0.9898	0.939
52DAP/47DAP	0.96805	0.893
57DAP/52DAP	0.93338	0.601
57DAP/7DAP	1.21393	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01214	1
17DAP/reference	1.02118	0.221
27DAP/reference	1.02195	0.301
39DAP/reference	0.9425	0.015
41DAP/reference	0.94347	0.203
42DAP/reference	0.92803	0.029
43DAP/reference	0.94699	0.166
47DAP/reference	1.32993	0.073
52DAP/reference	1.02244	1
57DAP/reference	0.93325	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05302	0.538
17DAP/reference	0.99757	0.786
27DAP/reference	0.98521	0.576
39DAP/reference	1.03097	0.639
41DAP/reference	0.8599	0.049
42DAP/reference	0.93576	0.042
43DAP/reference	1.13599	0.062
47DAP/reference	0.97842	0.5
52DAP/reference	0.95808	0.171
57DAP/reference	0.99978	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95614	0.214
17DAP/reference	0.95668	0.268
27DAP/reference	0.98397	0.49
39DAP/reference	1.01407	0.752
41DAP/reference	1.10405	0.486
42DAP/reference	1.0453	0.701
43DAP/reference	1.02646	0.91
47DAP/reference	1.05042	0.585
52DAP/reference	1.06572	0.614
57DAP/reference	0.6365	0.052

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09225	0.966
26DAP/20DAP	1.21931	0.285
34DAP/26DAP	1.1091	0.542
51DAP/34DAP	1.29242	0.07
52DAP/51DAP	0.93589	1
53DAP/52DAP	1.05626	0.858
55DAP/53DAP	0.98451	0.864
57DAP/55DAP	0.88707	0.49
62DAP/57DAP	1.11737	0.8
68DAP/62DAP	0.80539	0.29
68DAP/14DAP	0.87804	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86327	0.083

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.71221	0.06
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.33062	0.224
Mature Eggplant/Ripe Tomato	0.24269	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05538	1
1-1-2/M82	0.84426	1
12-2/M82	1.06471	1
12-4/M82	0.76024
1-3/M82	0.796	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.93995
3-2/M82	1.05483
4-1-1/M82	1.22046
4-1/M82	0.97095	1
4-3-2/M82	0.88339	1
4-3/M82	N/A	N/A
5-3/M82	1.05828	1
6-2/M82	1.01239
6-3/M82	1.02544	1
7-1/M82	0.90053
7-2/M82	0.88463	0.599
9-3-2/M82	0.98737	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01881	1
IL2-6/WTpooled	0.87524	0.473
IL7-5/WTpooled	0.92664	1
IL7-3/WTpooled	1.06411	1
IL12-4/WTpooled	1.09715	0.891
IL1-4/WTpooled	0.89821	0.699
WT/WTpooled	0.89858	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	0.94321	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98607	1
DC3000/delta hrp 6h	1.10203	0.978
DC3000/delta hrp 12h	0.99147	1
DC3000/delta hrp 24h	0.97526	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10348	0.25
DC3000 delta B/DC3000 delta AB	0.96903	0.805

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.78634	1
Exp 36h	1.75064	0.489
Exp 60h	2.17464	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95096	1
Var 0h	1.25314	0.782
Var 12h I row2-row1	1.00191	1
Var 12h NI row2-row1	0.98764	0.906
Var 36h I row2-row1	1.0152	1
Var 36h NI row2-row1	0.66976	0.45
Var 60h I row2-row1	0.96521	0.832
Var 60h NI row2-row1	0.96606	0.977
Time course 0hI-0hNI	0.99301	1
Time course 12hI-12hNI	1.05463	0.756
Time course 36hI-36hNI	1.06983	0.453
Time course 60hI-60hNI	1.38382	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)	0.94502	0.662
transgenic ySAMdc/azygous control (breaker)	0.728	0.142
transgenic ySAMdc/azygous control (red)	1.07	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99965	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10507	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84867	1
Manapal/WT (break)	0.86205	1
Manapal/WT (red)	1.03506	1