Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.6.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06864	0.812
27DAP/17DAP	1.11026	0.872
39DAP/27DAP	1.47655	0.176
41DAP/39DAP	1.28798	0.722
42DAP/41DAP	1.55344	0.342
43DAP/42DAP	1.71352	0.299
47DAP/43DAP	0.97801	0.879
52DAP/47DAP	1.02606	0.619
57DAP/52DAP	0.85845	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62848	0.033
17DAP/reference	0.47181	0.019
27DAP/reference	0.45446	0.018
39DAP/reference	0.92842	0.37
41DAP/reference	0.81251	0.201
42DAP/reference	2.46277	0.001
43DAP/reference	2.90448	0.006
47DAP/reference	2.58808	0.001
52DAP/reference	0.74703	0.057
57DAP/reference	1.24285	0.496

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05979	0.736
27DAP/17DAP	0.99899	0.969
39DAP/27DAP	1.12086	0.499
41DAP/39DAP	1.05143	0.827
42DAP/41DAP	1.1136	0.635
43DAP/42DAP	1.01753	0.83
47DAP/43DAP	1.02839	0.92
52DAP/47DAP	0.90826	0.498
57DAP/52DAP	0.98776	0.852
57DAP/7DAP	0.87129

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19307	0.209
17DAP/reference	1.03454	1
27DAP/reference	1.00436	0.656
39DAP/reference	1.00934	0.745
41DAP/reference	1.10412	1
42DAP/reference	1.04788	0.889
43DAP/reference	1.34594	0.325
47DAP/reference	1.09833	0.537
52DAP/reference	1.42319	0.008
57DAP/reference	1.14402	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63763	0.009
17DAP/reference	0.26518	0.003
27DAP/reference	0.58341	0.017
39DAP/reference	0.40066	0.009
41DAP/reference	0.46408	0.007
42DAP/reference	0.58286	0.014
43DAP/reference	0.7241	0.132
47DAP/reference	1.13563	0.833
52DAP/reference	0.2323	0.003
57DAP/reference	0.60914	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72234	0.455
17DAP/reference	0.69284	0.231
27DAP/reference	1.30552	0.934
39DAP/reference	0.72581	0.054
41DAP/reference	1.00528	0.826
42DAP/reference	1.75585	0.171
43DAP/reference	4.01321	0.028
47DAP/reference	3.20644	0.005
52DAP/reference	1.56089	0.312
57DAP/reference	0.6818	0.055

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03852	1
26DAP/20DAP	0.80693	0.512
34DAP/26DAP	1.47478	1
51DAP/34DAP	0.7827	0.201
52DAP/51DAP	0.98268	1
53DAP/52DAP	1.00747	0.961
55DAP/53DAP	1.22002	0.275
57DAP/55DAP	1.42713	0.287
62DAP/57DAP	1.02966
68DAP/62DAP	0.80577
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.4913	0.049

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99758	0.908
Mature Green Tomato/Ripe Tomato	0.55321	0.021
Immature Eggplant/Mature Eggplant	1.44021	0.05
Ripe Pepper/Ripe Tomato	0.19717	0.224
Mature Eggplant/Ripe Tomato	0.55121	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23608	0.591
1-1-2/M82	1.60068	1
12-2/M82	0.89801	0.955
12-4/M82	1.67026	1
1-3/M82	0.93691	1
2-1-1/M82	0.96564	1
2-1/M82	0.86677
2-6/M82	1.0151	1
3-2/M82	1.33613
4-1-1/M82	0.98272	1
4-1/M82	2.30466	0.466
4-3-2/M82	1.92428	0.508
4-3/M82	1.92943	1
5-3/M82	0.98316	1
6-2/M82	0.92016	1
6-3/M82	0.98746	1
7-1/M82	0.75338	0.452
7-2/M82	1.0066	1
9-3-2/M82	2.67834

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11196	0.277
IL2-6/WTpooled	1.32259	0.419
IL7-5/WTpooled	1.0196	1
IL7-3/WTpooled	0.82855	1
IL12-4/WTpooled	0.9118	1
IL1-4/WTpooled	0.99536	1
WT/WTpooled	1.02372	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	1.07062	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04656	0.921
DC3000/delta hrp 6h	1.05626	1
DC3000/delta hrp 12h	1.03877	1
DC3000/delta hrp 24h	0.9687	0.818

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	2.28105	0.234

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.48577	1
Exp 36h	0.99626	1
Exp 60h	1.26264	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00204	1
Var 0h	0.54397	0.339
Var 12h I row2-row1	1.23501	0.473
Var 12h NI row2-row1	0.98911	1
Var 36h I row2-row1	1.00939	1
Var 36h NI row2-row1	0.89391	0.61
Var 60h I row2-row1	1.04688	0.562
Var 60h NI row2-row1	1.00126	1
Time course 0hI-0hNI	0.96957	0.835
Time course 12hI-12hNI	0.98389	0.897
Time course 36hI-36hNI	1.19102	0.218
Time course 60hI-60hNI	1.64459	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)	0.64464	0.299
transgenic ySAMdc/azygous control (breaker)	1.11938	0.178
transgenic ySAMdc/azygous control (red)	1.1091	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.21777	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.66981	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09027	1
Manapal/WT (break)	1.14842	0.14
Manapal/WT (red)	0.8026	0.183