Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.3.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90185	0.503
27DAP/17DAP	1.24417	0.809
39DAP/27DAP	1.83804	0.32
41DAP/39DAP	0.89462	0.566
42DAP/41DAP	0.85583	1
43DAP/42DAP	1.12099	1
47DAP/43DAP	1.14269	0.584
52DAP/47DAP	1.12142	0.926
57DAP/52DAP	1.09359	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04097	0.662
17DAP/reference	0.92981	0.567
27DAP/reference	1.1286	0.365
39DAP/reference	1.21903	0.02
41DAP/reference	1.1128	0.714
42DAP/reference	1.21473	0.012
43DAP/reference	0.4908	0.331
47DAP/reference	1.02419	1
52DAP/reference	0.84896	0.223
57DAP/reference	2.17825	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02976	1
27DAP/17DAP	1.04732	0.915
39DAP/27DAP	1.35021	0.171
41DAP/39DAP	1.48238	0.69
42DAP/41DAP	1.03791	0.913
43DAP/42DAP	0.65345	0.025
47DAP/43DAP	1.14648	0.276
52DAP/47DAP	0.98272	0.917
57DAP/52DAP	0.9329	0.451
57DAP/7DAP	1.60823	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28632	0.04
17DAP/reference	1.12265	0.297
27DAP/reference	1.05819	0.371
39DAP/reference	1.31025	0.015
41DAP/reference	1.48552	0.013
42DAP/reference	1.21075	0.132
43DAP/reference	1.49719	0.008
47DAP/reference	1.51926	0.014
52DAP/reference	1.33374	0.011
57DAP/reference	1.52688	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06883	0.538
17DAP/reference	1.01734	0.979
27DAP/reference	1.06034	0.497
39DAP/reference	1.34129	0.018
41DAP/reference	1.13474	0.142
42DAP/reference	1.03575	0.794
43DAP/reference	1.12368	0.284
47DAP/reference	1.05154	0.454
52DAP/reference	1.05134	0.747
57DAP/reference	1.11388	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10604	0.18
17DAP/reference	0.95937	0.56
27DAP/reference	0.95084	0.357
39DAP/reference	1.11385	0.353
41DAP/reference	0.92648	0.209
42DAP/reference	0.99796	0.816
43DAP/reference	1.13757	0.314
47DAP/reference	0.9434	0.357
52DAP/reference	1.04124	0.759
57DAP/reference	0.93948	0.247

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.44035	0.966
26DAP/20DAP	1.31346	0.534
34DAP/26DAP	0.92219	0.816
51DAP/34DAP	1.00026	0.924
52DAP/51DAP	0.65434	0.079
53DAP/52DAP	0.94175	0.772
55DAP/53DAP	0.80694	0.06
57DAP/55DAP	1.08642	0.935
62DAP/57DAP	1.86556
68DAP/62DAP	1.0751	0.939
68DAP/14DAP	0.85524	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.76671	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.59926	0.075
Mature Green Tomato/Ripe Tomato	1.0247	0.881
Immature Eggplant/Mature Eggplant	1.30331	0.063
Ripe Pepper/Ripe Tomato	0.32424	0.224
Mature Eggplant/Ripe Tomato	0.73397	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94867	0.944
1-1-2/M82	1.18102	1
12-2/M82	0.88055	0.692
12-4/M82	1.20051	1
1-3/M82	1.58914	0.26
2-1-1/M82	1.06201	0.764
2-1/M82	1.30716	1
2-6/M82	1.11515	0.594
3-2/M82	1.14138	0.463
4-1-1/M82	0.99164	1
4-1/M82	1.10985
4-3-2/M82	1.52597	0.284
4-3/M82	1.36144	0.268
5-3/M82	1.2065	1
6-2/M82	1.70037	1
6-3/M82	1.07366	1
7-1/M82	1.09885	0.925
7-2/M82	1.90596	0.282
9-3-2/M82	1.35257	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11368	0.493
IL2-6/WTpooled	0.97813	1
IL7-5/WTpooled	0.97454	1
IL7-3/WTpooled	1.11012	0.362
IL12-4/WTpooled	0.98493	1
IL1-4/WTpooled	1.02523	1
WT/WTpooled	0.87761	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	1.14583	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99077	1
DC3000/delta hrp 6h	1.33901	0.857
DC3000/delta hrp 12h	1.19185	1
DC3000/delta hrp 24h	0.93591	0.554

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23642	0.049
DC3000 delta B/DC3000 delta AB	1.61779	0.079

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20937	1
Exp 36h	1.06136	1
Exp 60h	1.21217	0.563

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	0.97916	1
Var 12h I row2-row1	0.97293	0.353
Var 12h NI row2-row1	0.83513	0.713
Var 36h I row2-row1	0.97251
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.04199	1
Time course 0hI-0hNI	0.97862	0.988
Time course 12hI-12hNI	0.89118	0.511
Time course 36hI-36hNI	0.86816	0.119
Time course 60hI-60hNI	0.54938	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)	0.88121	0.315
transgenic ySAMdc/azygous control (breaker)	0.65	0.142
transgenic ySAMdc/azygous control (red)	0.86812	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.50769	0.032

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70632	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93277	1
Manapal/WT (break)	1.23301	0.183
Manapal/WT (red)	0.84563	0.181