Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.20.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21344	0.348
27DAP/17DAP	1.05706	0.92
39DAP/27DAP	0.93414	0.652
41DAP/39DAP	0.9139	0.67
42DAP/41DAP	0.71411	0.774
43DAP/42DAP	0.89406	0.815
47DAP/43DAP	0.65466	0.165
52DAP/47DAP	1.73745	0.239
57DAP/52DAP	0.94345	0.936

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12277	0.567
17DAP/reference	1.16658	0.166
27DAP/reference	1.17842	0.047
39DAP/reference	1.05923	0.734
41DAP/reference	1.30586	0.187
42DAP/reference	0.93794	0.182
43DAP/reference	0.78299	0.429
47DAP/reference	0.92115	0.011
52DAP/reference	1.03113	1
57DAP/reference	0.85254	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.72744	0.036
27DAP/17DAP	1.13398	0.664
39DAP/27DAP	0.62499	0.062
41DAP/39DAP	1.22922	0.674
42DAP/41DAP	0.9775	0.752
43DAP/42DAP	0.74533	0.022
47DAP/43DAP	1.11021	0.805
52DAP/47DAP	1.03674	0.883
57DAP/52DAP	1.08868	0.67
57DAP/7DAP	0.74929	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34536	0.044
17DAP/reference	1.2954	0.038
27DAP/reference	0.95388	0.215
39DAP/reference	1.07568	0.21
41DAP/reference	1.07489	0.303
42DAP/reference	1.00736	1
43DAP/reference	1.25183	0.05
47DAP/reference	1.15872	0.165
52DAP/reference	1.29182	0.028
57DAP/reference	1.23536	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08176	0.582
17DAP/reference	1.24033	0.077
27DAP/reference	1.17929	0.087
39DAP/reference	1.08759	0.556
41DAP/reference	1.06813	0.672
42DAP/reference	1.12611	0.38
43DAP/reference	1.12979	0.272
47DAP/reference	1.04632	0.19
52DAP/reference	0.99823	0.619
57DAP/reference	1.00324	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05596	0.691
17DAP/reference	1.11815	0.343
27DAP/reference	1.22437	0.021
39DAP/reference	1.07219	0.125
41DAP/reference	0.98266	0.56
42DAP/reference	0.84681	0.025
43DAP/reference	0.90183	0.237
47DAP/reference	0.90022	0.153
52DAP/reference	1.19281	0.463
57DAP/reference	1.01641	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79734	1
26DAP/20DAP	1.42771	0.16
34DAP/26DAP	0.96039	0.945
51DAP/34DAP	0.61566	0.083
52DAP/51DAP	1.36315	0.295
53DAP/52DAP	0.77397	0.288
55DAP/53DAP	1.18908	0.798
57DAP/55DAP	1.07041	0.947
62DAP/57DAP	1.46494	0.393
68DAP/62DAP	1.00809	0.863
68DAP/14DAP	0.92642	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.4779	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.43769	0.058
Mature Green Tomato/Ripe Tomato	3.0923	0.016
Immature Eggplant/Mature Eggplant	0.86882	0.329
Ripe Pepper/Ripe Tomato	0.65907	0.224
Mature Eggplant/Ripe Tomato	1.47223	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00275	1
1-1-2/M82	1.02319	1
12-2/M82	1.10045	1
12-4/M82	0.89384	0.619
1-3/M82	0.77801	0.378
2-1-1/M82	0.79483
2-1/M82	0.9435
2-6/M82	1.04027	1
3-2/M82	1.03706	0.84
4-1-1/M82	1.00274	1
4-1/M82	1.01171	1
4-3-2/M82	0.99085	1
4-3/M82	0.89607	0.72
5-3/M82	0.98959	1
6-2/M82	0.86931	0.481
6-3/M82	0.94533	1
7-1/M82	N/A	N/A
7-2/M82	0.91048	0.881
9-3-2/M82	1.07124	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93127	1
IL2-6/WTpooled	1.16397	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01629
IL12-4/WTpooled	1.13686	0.553
IL1-4/WTpooled	0.94072	1
WT/WTpooled	0.86327	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	0.87649	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09468	0.875
DC3000/delta hrp 6h	0.95481	0.95
DC3000/delta hrp 12h	0.9412	1
DC3000/delta hrp 24h	1.095	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25921	0.313
DC3000 delta B/DC3000 delta AB	0.95126	0.605

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80604	1
Exp 36h	1.10392	1
Exp 60h	1.10324	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98297	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.15281	0.283
Var 12h NI row2-row1	1.19135	0.34
Var 36h I row2-row1	1.12895	0.41
Var 36h NI row2-row1	1.33021	1
Var 60h I row2-row1	0.82414	0.306
Var 60h NI row2-row1	0.97166	1
Time course 0hI-0hNI	0.999	1
Time course 12hI-12hNI	0.97488	0.841
Time course 36hI-36hNI	1.00885	1
Time course 60hI-60hNI	1.3886	0.011

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)	1.12485	0.541
transgenic ySAMdc/azygous control (breaker)	0.86585	0.49
transgenic ySAMdc/azygous control (red)	1.02973	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01939	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72164	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80077	1
Manapal/WT (break)	0.81753	1
Manapal/WT (red)	0.69918	0.181