Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.13.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02042	0.964
27DAP/17DAP	1.14342	0.881
39DAP/27DAP	1.00437	0.749
41DAP/39DAP	1.66354	0.118
42DAP/41DAP	1.12086	0.983
43DAP/42DAP	1.05431	1
47DAP/43DAP	0.87305	0.591
52DAP/47DAP	1.37232	0.436
57DAP/52DAP	1.0445	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00926	1
17DAP/reference	1.03563	0.606
27DAP/reference	1.05172	0.285
39DAP/reference	1.00543	0.855
41DAP/reference	1.09355	0.102
42DAP/reference	0.95214	0.095
43DAP/reference	0.92042	0.287
47DAP/reference	0.94466	0.065
52DAP/reference	0.87937	0.195
57DAP/reference	0.97593	0.435

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98397	0.75
27DAP/17DAP	1.00247	1
39DAP/27DAP	1.04915	0.553
41DAP/39DAP	1.06639	0.801
42DAP/41DAP	0.98146	0.784
43DAP/42DAP	1.00262	1
47DAP/43DAP	1.00661	0.963
52DAP/47DAP	1.05429	0.779
57DAP/52DAP	1.05327	0.666
57DAP/7DAP	1.08084	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88282	0.074
17DAP/reference	0.93129	0.056
27DAP/reference	0.91314	0.048
39DAP/reference	1.01657	0.74
41DAP/reference	1.04611	0.491
42DAP/reference	1.04386	0.174
43DAP/reference	0.93108	0.064
47DAP/reference	0.88979	0.128
52DAP/reference	0.96881	0.363
57DAP/reference	1.03357	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01267	0.926
17DAP/reference	0.96808	0.422
27DAP/reference	0.94573	0.257
39DAP/reference	0.90933	0.202
41DAP/reference	0.89648	0.091
42DAP/reference	1.0007	0.723
43DAP/reference	0.93407	0.336
47DAP/reference	1.12246	0.076
52DAP/reference	0.9426	0.111
57DAP/reference	0.98407	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9574	0.127
17DAP/reference	0.95385	0.281
27DAP/reference	0.96543	0.302
39DAP/reference	0.96006	0.328
41DAP/reference	0.96741	0.371
42DAP/reference	0.85599	0.087
43DAP/reference	0.86244	0.088
47DAP/reference	0.94262	0.296
52DAP/reference	0.83965	0.14
57DAP/reference	0.67157	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97303	1
26DAP/20DAP	0.9613	0.512
34DAP/26DAP	1.06654	0.819
51DAP/34DAP	0.9129	0.213
52DAP/51DAP	0.98982	1
53DAP/52DAP	0.98064	0.897
55DAP/53DAP	1.04267	0.826
57DAP/55DAP	0.98372	0.88
62DAP/57DAP	1.04552	0.833
68DAP/62DAP	1.13239	0.827
68DAP/14DAP	0.71544	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97015	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.84015	0.2
Immature Eggplant/Mature Eggplant	1.60925	0.053
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	0.95885	0.944
1-1-2/M82	0.92386	1
12-2/M82	1.03568	1
12-4/M82	1.00363	1
1-3/M82	0.90874	0.501
2-1-1/M82	1.25682	0.764
2-1/M82	1.20451	1
2-6/M82	1.01864	1
3-2/M82	0.97256	1
4-1-1/M82	0.92178	1
4-1/M82	0.89861	1
4-3-2/M82	0.95619	1
4-3/M82	1.05787	1
5-3/M82	0.99407	1
6-2/M82	1.01766	1
6-3/M82	1.01304	1
7-1/M82	1.01412	0.992
7-2/M82	0.94963	1
9-3-2/M82	0.85039	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.17821	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93777	0.418
IL12-4/WTpooled	1.02116	0.785
IL1-4/WTpooled	0.88527
WT/WTpooled	1.03591	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	0.96705	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85678	0.734
DC3000/delta hrp 6h	1.03066	1
DC3000/delta hrp 12h	1.03148	1
DC3000/delta hrp 24h	1.05638	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18695	0.042
DC3000 delta B/DC3000 delta AB	1.12909	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93426	0.328
Exp 36h	N/A	N/A
Exp 60h	0.72479	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00829	1
Var 0h	0.83545	0.933
Var 12h I row2-row1	1.10955	0.196
Var 12h NI row2-row1	1.0803	1
Var 36h I row2-row1	0.97464	1
Var 36h NI row2-row1	1.02458	1
Var 60h I row2-row1	1.3093	1
Var 60h NI row2-row1	1.14401	0.904
Time course 0hI-0hNI	1.10244	0.764
Time course 12hI-12hNI	1.07851	0.72
Time course 36hI-36hNI	0.98908	0.644
Time course 60hI-60hNI	1.31811	0.009

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.60695	0.248
transgenic ySAMdc/azygous control (red)	1.40074	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98863	0.072

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82154	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.76856	0.181