Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13854	0.452
27DAP/17DAP	1.17969	0.847
39DAP/27DAP	0.95658	0.67
41DAP/39DAP	1.22171	0.328
42DAP/41DAP	1.13819	0.843
43DAP/42DAP	0.94765	0.877
47DAP/43DAP	1.14554	0.595
52DAP/47DAP	1.06664	0.98
57DAP/52DAP	1.13806	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98425	0.589
17DAP/reference	1.05119	0.239
27DAP/reference	1.06082	0.384
39DAP/reference	0.99056	0.828
41DAP/reference	0.9392	0.341
42DAP/reference	1.00479	0.755
43DAP/reference	0.97837	0.691
47DAP/reference	1.00995	1
52DAP/reference	0.90189	0.096
57DAP/reference	1.00311	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97255	0.679
27DAP/17DAP	1.02543	0.942
39DAP/27DAP	1.05652	0.646
41DAP/39DAP	1.05515	0.827
42DAP/41DAP	1.03748	0.991
43DAP/42DAP	1.16262	0.192
47DAP/43DAP	1.02402	0.956
52DAP/47DAP	1.06369	0.776
57DAP/52DAP	0.9677	0.697
57DAP/7DAP	1.14846	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20975	0.15
17DAP/reference	1.29209	0.244
27DAP/reference	1.13849	0.073
39DAP/reference	1.14817	0.46
41DAP/reference	1.16397	0.325
42DAP/reference	0.9927	0.675
43DAP/reference	1.11246	0.408
47DAP/reference	1.1631	0.377
52DAP/reference	1.26398	0.121
57DAP/reference	1.16171	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03848	0.491
17DAP/reference	1.02358	0.674
27DAP/reference	1.03417	0.726
39DAP/reference	1.0268	0.62
41DAP/reference	1.03414	0.737
42DAP/reference	0.97108	0.289
43DAP/reference	0.96842	0.539
47DAP/reference	0.98456	0.41
52DAP/reference	1.04296	0.24
57DAP/reference	1.06583	0.104

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05842	0.469
17DAP/reference	1.03428	0.545
27DAP/reference	1.40086	0.041
39DAP/reference	1.03707	0.836
41DAP/reference	1.12958	0.168
42DAP/reference	1.12453	0.364
43DAP/reference	1.26117	0.241
47DAP/reference	1.0262	0.704
52DAP/reference	1.01205	0.99
57DAP/reference	0.99482	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95947	1
26DAP/20DAP	0.90953	0.512
34DAP/26DAP	0.67638	0.086
51DAP/34DAP	1.01074	0.988
52DAP/51DAP	1.04861	0.722
53DAP/52DAP	1.16997	0.712
55DAP/53DAP	0.9636	0.648
57DAP/55DAP	1.20507	0.745
62DAP/57DAP	1.01722	1
68DAP/62DAP	1.0085	1
68DAP/14DAP	0.92566	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7705	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.0393	0.075
Mature Green Tomato/Ripe Tomato	1.01924	1
Immature Eggplant/Mature Eggplant	1.12701	0.267
Ripe Pepper/Ripe Tomato	0.87518	1
Mature Eggplant/Ripe Tomato	2.72528	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.04247
12-2/M82	N/A	N/A
12-4/M82	0.81111
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	0.82912
7-2/M82	1.18916
9-3-2/M82	0.94286

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.77253	0.358
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85874	0.418
IL12-4/WTpooled	0.91915	0.71
IL1-4/WTpooled	0.71242
WT/WTpooled	0.96237	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	0.93318	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9876	1
DC3000/delta hrp 6h	1.04041	0.95
DC3000/delta hrp 12h	1.01358	1
DC3000/delta hrp 24h	1.14488	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98202	1
DC3000 delta B/DC3000 delta AB	1.0925	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03915	1
Exp 36h	1.01869	1
Exp 60h	0.88026	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01829	1
Var 0h	0.86141	1
Var 12h I row2-row1	0.84489	0.467
Var 12h NI row2-row1	0.93761	0.443
Var 36h I row2-row1	0.84436	0.805
Var 36h NI row2-row1	1.17165	1
Var 60h I row2-row1	0.5521	1
Var 60h NI row2-row1	0.99394	1
Time course 0hI-0hNI	0.97595	0.873
Time course 12hI-12hNI	1.02522	0.738
Time course 36hI-36hNI	0.88704	0.101
Time course 60hI-60hNI	0.50711	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)	1.10616	0.292
transgenic ySAMdc/azygous control (breaker)	0.98266	1
transgenic ySAMdc/azygous control (red)	1.09583	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93957	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87852	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02598	1
Manapal/WT (break)	1.07862	1
Manapal/WT (red)	0.7312	0.188