Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96172	0.671
27DAP/17DAP	0.6946	0.107
39DAP/27DAP	1.64319	0.2
41DAP/39DAP	1.18075	0.225
42DAP/41DAP	1.30948	0.644
43DAP/42DAP	1.10754	1
47DAP/43DAP	0.95097	0.815
52DAP/47DAP	0.90423	0.702
57DAP/52DAP	1.15855	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78629	0.054
17DAP/reference	0.86111	0.097
27DAP/reference	0.73923	0.012
39DAP/reference	0.91796	0.306
41DAP/reference	0.90158	0.049
42DAP/reference	1.53556	0.001
43DAP/reference	3.41265	0.007
47DAP/reference	1.78639	0.002
52DAP/reference	0.92122	0.244
57DAP/reference	1.68529	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75287	0.058
27DAP/17DAP	1.13208	0.73
39DAP/27DAP	1.20319	0.209
41DAP/39DAP	0.7803	0.133
42DAP/41DAP	1.59931	0.002
43DAP/42DAP	2.1172	0.014
47DAP/43DAP	0.99823	0.961
52DAP/47DAP	1.11217	0.939
57DAP/52DAP	0.88918	0.524
57DAP/7DAP	1.27932	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08454	0.691
17DAP/reference	0.89732	0.094
27DAP/reference	0.92201	0.2
39DAP/reference	1.25187	0.086
41DAP/reference	1.07166	0.745
42DAP/reference	1.37323	0.009
43DAP/reference	1.28282	0.07
47DAP/reference	1.42369	0.016
52DAP/reference	1.2495	0.058
57DAP/reference	1.24428	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80747	0.105
17DAP/reference	0.75774	0.004
27DAP/reference	0.73407	0.021
39DAP/reference	1.04996	0.746
41DAP/reference	1.04655	1
42DAP/reference	0.97734	0.482
43DAP/reference	0.9588	0.45
47DAP/reference	1.4911	0.059
52DAP/reference	0.66372	0.004
57DAP/reference	0.97063	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99493	0.699
17DAP/reference	0.83594	0.038
27DAP/reference	0.85534	0.039
39DAP/reference	0.98275	0.591
41DAP/reference	0.91315	0.264
42DAP/reference	1.32105	0.094
43DAP/reference	1.38295	0.068
47DAP/reference	1.8974	0.014
52DAP/reference	0.96144	0.582
57DAP/reference	0.89858	0.258

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02501	1
26DAP/20DAP	1.64356	0.098
34DAP/26DAP	0.81856	0.311
51DAP/34DAP	0.72955	0.093
52DAP/51DAP	1.15802	0.367
53DAP/52DAP	0.88194	0.465
55DAP/53DAP	1.00498	0.939
57DAP/55DAP	0.97435	0.845
62DAP/57DAP	1.1312	0.185
68DAP/62DAP	0.72261	0.227
68DAP/14DAP	0.67273

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.68029	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.87603	0.058
Mature Green Tomato/Ripe Tomato	0.5737	0.055
Immature Eggplant/Mature Eggplant	0.83715	0.594
Ripe Pepper/Ripe Tomato	0.07143	0.224
Mature Eggplant/Ripe Tomato	0.16487	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03399	1
1-1-2/M82	1.07197	1
12-2/M82	1.05546	1
12-4/M82	1.37626	1
1-3/M82	1.744	0.277
2-1-1/M82	0.68747	0.465
2-1/M82	0.59551	0.325
2-6/M82	0.82237	1
3-2/M82	1.48767
4-1-1/M82	0.73305	1
4-1/M82	0.93917
4-3-2/M82	0.93866	1
4-3/M82	1.13547	1
5-3/M82	1.29793	0.572
6-2/M82	1.96621	1
6-3/M82	0.94444	1
7-1/M82	0.91573	1
7-2/M82	0.62426	0.486
9-3-2/M82	1.25485	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.65093	0.243
IL2-6/WTpooled	1.33253	0.531
IL7-5/WTpooled	1.19961	0.792
IL7-3/WTpooled	1.05864	1
IL12-4/WTpooled	0.82439	0.71
IL1-4/WTpooled	1.19122	1
WT/WTpooled	1.24943	0.999

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	0.92761	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09381	0.921
DC3000/delta hrp 6h	0.90825	0.95
DC3000/delta hrp 12h	1.06026	1
DC3000/delta hrp 24h	1.07739	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8373	0.273
DC3000 delta B/DC3000 delta AB	0.95113	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96158	1
Exp 36h	0.97448	0.943
Exp 60h	1.06309	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98837	1
Var 0h	0.66739	1
Var 12h I row2-row1	1.43532	0.406
Var 12h NI row2-row1	1.00865	1
Var 36h I row2-row1	1.1489	0.41
Var 36h NI row2-row1	1.18188	0.482
Var 60h I row2-row1	0.66406	0.306
Var 60h NI row2-row1	1.25366	0.904
Time course 0hI-0hNI	0.94682	0.725
Time course 12hI-12hNI	0.87088	0.26
Time course 36hI-36hNI	0.93665	0.295
Time course 60hI-60hNI	1.01757	1

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)	1.38701	0.318
transgenic ySAMdc/azygous control (breaker)	0.69541	0.173
transgenic ySAMdc/azygous control (red)	0.88684	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00958	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93988	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07131	1
Manapal/WT (break)	0.91095	1
Manapal/WT (red)	0.45097	0.181