Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75185	0.253
27DAP/17DAP	0.88667	0.745
39DAP/27DAP	1.21629	0.476
41DAP/39DAP	1.00573	1
42DAP/41DAP	0.72438	0.774
43DAP/42DAP	0.99467	0.937
47DAP/43DAP	0.98402	0.92
52DAP/47DAP	1.05215	0.902
57DAP/52DAP	0.99283	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04999	0.9
17DAP/reference	0.73263	0.008
27DAP/reference	0.84354	0.055
39DAP/reference	0.91095	0.254
41DAP/reference	0.85508	0.01
42DAP/reference	0.87334	0.067
43DAP/reference	1.06904	0.569
47DAP/reference	1.19453	0.032
52DAP/reference	0.9198	0.258
57DAP/reference	1.20395	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88406	0.121
27DAP/17DAP	1.03487	0.9
39DAP/27DAP	1.04723	0.643
41DAP/39DAP	1.1144	0.603
42DAP/41DAP	1.07724	0.916
43DAP/42DAP	0.98619	0.902
47DAP/43DAP	1.02034	0.873
52DAP/47DAP	0.95873	0.729
57DAP/52DAP	1.03214	0.851
57DAP/7DAP	1.07939	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96374	0.445
17DAP/reference	0.95012	0.338
27DAP/reference	1.09944	0.664
39DAP/reference	0.90892	0.17
41DAP/reference	0.71677	0.023
42DAP/reference	0.76443	0.077
43DAP/reference	0.82635	0.026
47DAP/reference	0.96696	0.671
52DAP/reference	0.75329	0.066
57DAP/reference	0.68828	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25665	0.545
17DAP/reference	0.59224	0.008
27DAP/reference	0.75104	0.009
39DAP/reference	0.80244	0.026
41DAP/reference	0.74956	0.042
42DAP/reference	0.85665	0.189
43DAP/reference	0.78535	0.128
47DAP/reference	1.07411	0.556
52DAP/reference	0.77247	0.005
57DAP/reference	0.84475	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12493	0.602
17DAP/reference	0.81986	0.066
27DAP/reference	0.8625	0.113
39DAP/reference	1.2354	0.041
41DAP/reference	1.203	0.104
42DAP/reference	0.92181	0.361
43DAP/reference	0.83647	0.057
47DAP/reference	0.89585	0.109
52DAP/reference	0.92441	0.444
57DAP/reference	0.92581	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05438	1
26DAP/20DAP	0.94712	0.244
34DAP/26DAP	1.11381	0.542
51DAP/34DAP	0.89447	0.311
52DAP/51DAP	1.02049	0.792
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.0877	0.771
57DAP/55DAP	0.9544	0.744
62DAP/57DAP	5.84449	0.723
68DAP/62DAP	1.50281	0.597
68DAP/14DAP	1.01786	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05478	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.94345	0.058
Mature Green Tomato/Ripe Tomato	2.30729	0.299
Immature Eggplant/Mature Eggplant	13.1602	0.05
Ripe Pepper/Ripe Tomato	1.15053	1
Mature Eggplant/Ripe Tomato	1.48599	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.80899	0.638
1-1-2/M82	0.99467	1
12-2/M82	0.83816	0.955
12-4/M82	0.91744	1
1-3/M82	2.56201
2-1-1/M82	1.74771	0.375
2-1/M82	1.03458	1
2-6/M82	1.45473	0.395
3-2/M82	1.52071	0.84
4-1-1/M82	0.97095
4-1/M82	0.97538
4-3-2/M82	1.85873	0.508
4-3/M82	1.71764	1
5-3/M82	1.02051	1
6-2/M82	1.46467	0.253
6-3/M82	1.01096	1
7-1/M82	0.99199	1
7-2/M82	1.89184	0.302
9-3-2/M82	1.21519	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18436	0.277
IL2-6/WTpooled	1.08049	1
IL7-5/WTpooled	1.05885
IL7-3/WTpooled	0.95594	1
IL12-4/WTpooled	0.97724	1
IL1-4/WTpooled	0.8566	0.476
WT/WTpooled	1.08376	0.999

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	0.91548	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02213	0.921
DC3000/delta hrp 6h	1.02454	1
DC3000/delta hrp 12h	1.07133	1
DC3000/delta hrp 24h	0.57168	0.04

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02652	0.598
DC3000 delta B/DC3000 delta AB	1.02441	0.646

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04104	1
Exp 36h	0.80223	0.406
Exp 60h	0.76313	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0797	1
Var 0h	0.56736	0.782
Var 12h I row2-row1	1.06929	0.654
Var 12h NI row2-row1	0.96205	0.82
Var 36h I row2-row1	0.98486	0.805
Var 36h NI row2-row1	0.99325	0.852
Var 60h I row2-row1	1.42302	0.562
Var 60h NI row2-row1	1.13003	0.904
Time course 0hI-0hNI	1.03093	0.833
Time course 12hI-12hNI	0.9853	0.906
Time course 36hI-36hNI	1.10467	0.039
Time course 60hI-60hNI	1.17676	0.06

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)	0.77859	0.299
transgenic ySAMdc/azygous control (breaker)	0.65917	0.173
transgenic ySAMdc/azygous control (red)	0.90952	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93541	0.067

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.41235	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.57324	0.172
Manapal/WT (break)	1.19199	1
Manapal/WT (red)	0.96953	0.863