Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.3.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73685	0.131
27DAP/17DAP	1.08973	0.902
39DAP/27DAP	1.27099	0.408
41DAP/39DAP	1.03075	0.976
42DAP/41DAP	0.9372	1
43DAP/42DAP	1.04678	1
47DAP/43DAP	1.21537	0.502
52DAP/47DAP	1.04055	0.973
57DAP/52DAP	1.03595	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.48299	0.024
17DAP/reference	0.25925	0.007
27DAP/reference	0.41752	0.013
39DAP/reference	0.28546	0.007
41DAP/reference	0.74612	0.267
42DAP/reference	0.47085	0.002
43DAP/reference	0.27643
47DAP/reference	0.50703	0.001
52DAP/reference	0.43187	0.014
57DAP/reference	0.73725

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13418	0.5
27DAP/17DAP	0.86974	0.475
39DAP/27DAP	1.11748	0.496
41DAP/39DAP	0.59929	0.014
42DAP/41DAP	1.277	0.129
43DAP/42DAP	1.4503	0.014
47DAP/43DAP	0.96269	0.75
52DAP/47DAP	0.83888	0.188
57DAP/52DAP	0.86783	0.382
57DAP/7DAP	0.70892	0.181

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97806	0.55
17DAP/reference	1.01543	1
27DAP/reference	1.0705	0.041
39DAP/reference	1.20268	0.024
41DAP/reference	0.95366	0.375
42DAP/reference	1.02496	1
43DAP/reference	0.89693	0.095
47DAP/reference	0.83309	0.293
52DAP/reference	1.1052	0.375
57DAP/reference	0.90061	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74992	0.145
17DAP/reference	0.51177	0.007
27DAP/reference	0.71556	0.051
39DAP/reference	0.52809	0.036
41DAP/reference	0.76219	0.098
42DAP/reference	0.57497	0.237
43DAP/reference	0.73894	0.08
47DAP/reference	0.49128	0.015
52DAP/reference	0.48782	0.012
57DAP/reference	0.56192	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01857	0.653
17DAP/reference	0.7771	0.275
27DAP/reference	0.95921	0.566
39DAP/reference	1.05823	1
41DAP/reference	0.95568	0.512
42DAP/reference	0.93266	0.445
43DAP/reference	0.95378	0.503
47DAP/reference	0.33615	0.004
52DAP/reference	0.82156	0.296
57DAP/reference	1.12315	0.652

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97735	1
26DAP/20DAP	0.98108	1
34DAP/26DAP	1.05974	1
51DAP/34DAP	2.35005	0.022
52DAP/51DAP	0.84146	0.151
53DAP/52DAP	2.50611	0.02
55DAP/53DAP	0.91578	0.169
57DAP/55DAP	1.44469	0.167
62DAP/57DAP	0.67441	0.05
68DAP/62DAP	1.01624	0.939
68DAP/14DAP	1.84508	0.05

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.33477	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.2338	0.06
Mature Green Tomato/Ripe Tomato	1.54627	0.149
Immature Eggplant/Mature Eggplant	1.1461	0.288
Ripe Pepper/Ripe Tomato	3.43713	1
Mature Eggplant/Ripe Tomato	0.66717	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94262	0.944
1-1-2/M82	1.08708	1
12-2/M82	1.03869	1
12-4/M82	1.06125	1
1-3/M82	1.23711	1
2-1-1/M82	0.97766	1
2-1/M82	0.96993	1
2-6/M82	1.27387	0.405
3-2/M82	1.0335
4-1-1/M82	1.20675	1
4-1/M82	1.01573	1
4-3-2/M82	1.73589	0.241
4-3/M82	1.70798	1
5-3/M82	0.94943	1
6-2/M82	1.33476	1
6-3/M82	1.01824	1
7-1/M82	1.03599	1
7-2/M82	1.10577	1
9-3-2/M82	1.38818	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82798	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.9345	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.94377	0.476
WT/WTpooled	1.25026	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	0.99691	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89527	0.849
DC3000/delta hrp 6h	1.04989	1
DC3000/delta hrp 12h	0.97524	1
DC3000/delta hrp 24h	0.82443	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0373	0.384
DC3000 delta B/DC3000 delta AB	1.06961	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01743	1
Exp 36h	0.90431	0.504
Exp 60h	0.90978	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97606	1
Var 0h	0.47183	1
Var 12h I row2-row1	0.95685	0.705
Var 12h NI row2-row1	1.07551	1
Var 36h I row2-row1	1.01255	1
Var 36h NI row2-row1	1.39561	0.276
Var 60h I row2-row1	0.80115	0.374
Var 60h NI row2-row1	1.2808	0.904
Time course 0hI-0hNI	1.04792	0.852
Time course 12hI-12hNI	0.99341	0.984
Time course 36hI-36hNI	0.88529	0.236
Time course 60hI-60hNI	0.41902	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)	1.07089	0.654
transgenic ySAMdc/azygous control (breaker)	0.83589	0.173
transgenic ySAMdc/azygous control (red)	1.79528	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.31607	0.051

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.01473	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.36273	0.083
Manapal/WT (break)	2.01888	0.183
Manapal/WT (red)	2.4293	0.142