Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.4.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	4.69238	0.076
27DAP/17DAP	0.96576	0.958
39DAP/27DAP	0.68429	0.353
41DAP/39DAP	1.17511	0.844
42DAP/41DAP	0.92205	0.774
43DAP/42DAP	1.12646	0.91
47DAP/43DAP	1.24986	0.49
52DAP/47DAP	0.82493	0.54
57DAP/52DAP	1.10657	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0418	0.814
17DAP/reference	2.31645	0.014
27DAP/reference	2.46508	0.007
39DAP/reference	1.72955	0.014
41DAP/reference	1.8043	0.013
42DAP/reference	1.1945	0.017
43DAP/reference	1.0412	0.518
47DAP/reference	1.08551	0.093
52DAP/reference	1.12786	0.043
57DAP/reference	0.9734	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10125	0.642
27DAP/17DAP	0.98165	0.887
39DAP/27DAP	1.05314	0.646
41DAP/39DAP	1.03389	1
42DAP/41DAP	0.96985	0.726
43DAP/42DAP	1.13605	0.112
47DAP/43DAP	0.97976	0.923
52DAP/47DAP	1.04346	0.844
57DAP/52DAP	0.97629	0.678
57DAP/7DAP	1.21102	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1307	0.193
17DAP/reference	1.05754	0.525
27DAP/reference	0.91831	0.146
39DAP/reference	0.86259	0.018
41DAP/reference	1.02624	0.778
42DAP/reference	0.81342	0.033
43DAP/reference	0.76949	0.054
47DAP/reference	0.87799	0.293
52DAP/reference	0.69383	0.021
57DAP/reference	0.86328	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88185	0.329
17DAP/reference	2.74623	0.009
27DAP/reference	1.60156	0.019
39DAP/reference	1.79447	0.401
41DAP/reference	1.32275	0.814
42DAP/reference	1.30703	0.038
43DAP/reference	1.22788	0.503
47DAP/reference	1.36016	0.015
52DAP/reference	1.90585	0.006
57DAP/reference	1.17416	0.437

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70726	0.015
17DAP/reference	1.43899	0.39
27DAP/reference	1.50861	0.034
39DAP/reference	1.28671	0.01
41DAP/reference	0.99527	0.754
42DAP/reference	0.94844	0.361
43DAP/reference	0.92662	0.365
47DAP/reference	0.88486	0.057
52DAP/reference	1.01145	1
57DAP/reference	1.09278	0.291

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16023	0.966
26DAP/20DAP	0.97038	1
34DAP/26DAP	1.02598	1
51DAP/34DAP	1.12055	0.473
52DAP/51DAP	1.09422	0.588
53DAP/52DAP	0.95307	0.783
55DAP/53DAP	1.00699	0.917
57DAP/55DAP	0.97519	0.828
62DAP/57DAP	1.04869	1
68DAP/62DAP	0.92279	0.747
68DAP/14DAP	0.92194	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7338	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.48941	0.11
Mature Green Tomato/Ripe Tomato	2.07428	0.149
Immature Eggplant/Mature Eggplant	1.15905
Ripe Pepper/Ripe Tomato	1.61565	1
Mature Eggplant/Ripe Tomato	0.55246	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.55866	0.613
1-1-2/M82	1.18054	1
12-2/M82	1.29052	0.519
12-4/M82	0.62724	0.319
1-3/M82	2.50188	0.248
2-1-1/M82	0.86728
2-1/M82	0.84951	0.318
2-6/M82	0.56289	0.501
3-2/M82	1.61991
4-1-1/M82	1.44874	1
4-1/M82	1.31422
4-3-2/M82	0.90899	1
4-3/M82	0.40698	0.421
5-3/M82	1.17428	1
6-2/M82	0.94122	1
6-3/M82	2.42947	0.971
7-1/M82	1.22878	0.539
7-2/M82	1.05903	1
9-3-2/M82	0.83763

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.69162	0.554
IL1-4/WTpooled	1.24079
WT/WTpooled	0.88162	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	1.03225	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91707	0.868
DC3000/delta hrp 6h	0.87402	0.95
DC3000/delta hrp 12h	1.01656	1
DC3000/delta hrp 24h	0.4791	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93052	0.724
DC3000 delta B/DC3000 delta AB	1.05547	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87259	1
Exp 36h	0.46021	0.471
Exp 60h	0.5809	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.97495	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.97802	0.789
transgenic ySAMdc/azygous control (breaker)	1.32503	0.248
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.26681	0.059

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.35874	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2786	0.14
Manapal/WT (break)	1.0584	1
Manapal/WT (red)	1.28672	0.413