Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09784	0.964
27DAP/17DAP	1.35712	0.735
39DAP/27DAP	1.22012	0.635
41DAP/39DAP	1.15644	0.266
42DAP/41DAP	1.03934	0.999
43DAP/42DAP	0.89801	0.801
47DAP/43DAP	1.53947	0.448
52DAP/47DAP	1.04453	0.9
57DAP/52DAP	1.31918	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85513	0.035
17DAP/reference	0.99579	0.904
27DAP/reference	0.94128	0.295
39DAP/reference	1.04692	0.434
41DAP/reference	0.96009	0.542
42DAP/reference	0.89973	0.012
43DAP/reference	0.97924	0.708
47DAP/reference	0.92141	0.116
52DAP/reference	0.96423	0.438
57DAP/reference	0.91861	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96053	0.663
27DAP/17DAP	1.02426	0.995
39DAP/27DAP	1.1704	0.197
41DAP/39DAP	0.8969	0.31
42DAP/41DAP	1.03088	0.976
43DAP/42DAP	0.9608	0.751
47DAP/43DAP	1.05304	0.914
52DAP/47DAP	1.1532	0.489
57DAP/52DAP	1.00833	0.897
57DAP/7DAP	1.01302	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01694	1
17DAP/reference	0.99753	0.599
27DAP/reference	0.8707	0.076
39DAP/reference	0.98865	0.64
41DAP/reference	1.07734	0.701
42DAP/reference	0.97648	0.554
43DAP/reference	0.87729	0.025
47DAP/reference	1.00695	1
52DAP/reference	0.87707	0.126
57DAP/reference	1.05222	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00544	0.907
17DAP/reference	0.98116	0.611
27DAP/reference	0.88343	0.134
39DAP/reference	0.91259	0.132
41DAP/reference	0.93464	0.307
42DAP/reference	0.85136	0.067
43DAP/reference	1.01035	0.774
47DAP/reference	0.88064	0.105
52DAP/reference	0.91012	0.111
57DAP/reference	0.90602	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88771	0.087
17DAP/reference	0.9733	0.636
27DAP/reference	0.97831	0.566
39DAP/reference	0.96259	0.464
41DAP/reference	0.88193	0.086
42DAP/reference	0.85528	0.108
43DAP/reference	1.02284	0.935
47DAP/reference	0.97894	0.509
52DAP/reference	0.77711	0.141
57DAP/reference	0.92887	0.221

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98746	1
26DAP/20DAP	0.87524	0.512
34DAP/26DAP	0.92292	0.816
51DAP/34DAP	0.89458
52DAP/51DAP	1.17059	0.77
53DAP/52DAP	1.1137	0.768
55DAP/53DAP	1.16296	0.487
57DAP/55DAP	0.93065	0.652
62DAP/57DAP	0.97457	0.994
68DAP/62DAP	1.00011	0.885
68DAP/14DAP	0.94585	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24302	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.67575	0.058
Mature Green Tomato/Ripe Tomato	1.02452	1
Immature Eggplant/Mature Eggplant	0.74707	0.159
Ripe Pepper/Ripe Tomato	0.54469	0.224
Mature Eggplant/Ripe Tomato	0.59423	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.74711	0.907
1-1-2/M82	1.01815	1
12-2/M82	0.99131	1
12-4/M82	0.91263	1
1-3/M82	0.8792
2-1-1/M82	0.76198	0.465
2-1/M82	1.06263	1
2-6/M82	0.82642	1
3-2/M82	1.20969
4-1-1/M82	1.19435	1
4-1/M82	N/A	N/A
4-3-2/M82	0.90879	1
4-3/M82	1.10734	1
5-3/M82	1.11508	0.572
6-2/M82	1.00519	1
6-3/M82	1.08653	1
7-1/M82	1.02371
7-2/M82	1.00052
9-3-2/M82	1.09042	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01193
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.7225	0.31
IL12-4/WTpooled	1.14041	0.839
IL1-4/WTpooled	0.91607	0.834
WT/WTpooled	1.10875	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	0.96263	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.8939	1
DC3000/delta hrp 6h	0.92771	0.95
DC3000/delta hrp 12h	1.06105	1
DC3000/delta hrp 24h	1.07997	0.633

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	1.17209

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09586	1
Exp 36h	1.38803	0.489
Exp 60h	1.0517	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01111	1
Var 0h	0.97791	1
Var 12h I row2-row1	0.9721	0.948
Var 12h NI row2-row1	1.15199	1
Var 36h I row2-row1	1.15918	1
Var 36h NI row2-row1	0.92931	0.743
Var 60h I row2-row1	1.07181	0.448
Var 60h NI row2-row1	0.78303	0.932
Time course 0hI-0hNI	0.87897	0.54
Time course 12hI-12hNI	0.89066	0.519
Time course 36hI-36hNI	0.95985	0.46
Time course 60hI-60hNI	1.59039	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)	0.86385	0.299
transgenic ySAMdc/azygous control (breaker)	1.23767	0.248
transgenic ySAMdc/azygous control (red)	1.17394	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87497	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79279	0.172
Manapal/WT (break)	0.77137	0.333
Manapal/WT (red)	1.08193	1