Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09308	0.964
27DAP/17DAP	1.616	0.528
39DAP/27DAP	1.21693	0.631
41DAP/39DAP	1.12418	0.642
42DAP/41DAP	1.01043	1
43DAP/42DAP	0.82981	0.705
47DAP/43DAP	1.16259	0.733
52DAP/47DAP	1.27281	0.518
57DAP/52DAP	1.44006	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05968	0.544
17DAP/reference	0.86831	0.111
27DAP/reference	0.76306	0.017
39DAP/reference	0.84185	0.042
41DAP/reference	0.79254	0.009
42DAP/reference	1.72322	0.002
43DAP/reference	0.92126	0.191
47DAP/reference	1.3367	0.593
52DAP/reference	0.98181	0.53
57DAP/reference	1.00585	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16391	0.389
27DAP/17DAP	0.83675	0.295
39DAP/27DAP	0.89738	0.502
41DAP/39DAP	1.19262	0.801
42DAP/41DAP	1.17996	0.495
43DAP/42DAP	1.15072	0.746
47DAP/43DAP	1.22586	0.744
52DAP/47DAP	0.69269	0.078
57DAP/52DAP	1.07162	0.874
57DAP/7DAP	0.9731	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.08242	0.043
17DAP/reference	1.40675	0.023
27DAP/reference	1.79471	0.006
39DAP/reference	1.607	0.012
41DAP/reference	1.70815	0.015
42DAP/reference	1.93327	0.018
43DAP/reference	2.00663	0.006
47DAP/reference	2.2836	0.021
52DAP/reference	7.72694	0.007
57DAP/reference	4.15897	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05077	0.589
17DAP/reference	1.19562	0.139
27DAP/reference	1.57304	0.023
39DAP/reference	1.32428	0.022
41DAP/reference	1.43958	0.034
42DAP/reference	1.34198	0.057
43DAP/reference	1.00466	0.646
47DAP/reference	0.97835	0.512
52DAP/reference	1.50884	0.008
57DAP/reference	1.14742	0.437

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.40527	0.027
17DAP/reference	0.93698	0.477
27DAP/reference	1.22861	0.081
39DAP/reference	2.89106	0.022
41DAP/reference	2.29958	0.006
42DAP/reference	1.79457	0.009
43DAP/reference	1.79966	0.012
47DAP/reference	1.30835	0.007
52DAP/reference	1.56365	0.052
57DAP/reference	2.04461	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04906	0.966
26DAP/20DAP	1.35835	0.875
34DAP/26DAP	0.871	0.387
51DAP/34DAP	0.78566	0.555
52DAP/51DAP	0.93482
53DAP/52DAP	1.02586	0.868
55DAP/53DAP	1.45547	0.855
57DAP/55DAP	0.85783	0.629
62DAP/57DAP	1.05889	0.767
68DAP/62DAP	1.06095	1
68DAP/14DAP	1.51676	0.125

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24124	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99626	0.908
Mature Green Tomato/Ripe Tomato	0.7549	0.446
Immature Eggplant/Mature Eggplant	0.97323	0.912
Ripe Pepper/Ripe Tomato	0.71686	0.224
Mature Eggplant/Ripe Tomato	1.14683	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.51003
1-1-2/M82	1.06198
12-2/M82	N/A	N/A
12-4/M82	0.91031	0.619
1-3/M82	0.72078
2-1-1/M82	0.79215
2-1/M82	N/A	N/A
2-6/M82	0.85465	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.3996	0.496
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03525	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.88834	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.90808	1
IL1-4/WTpooled	1.10771	1
WT/WTpooled	0.96664	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	0.99423	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18428	0.921
DC3000/delta hrp 6h	0.97692	0.95
DC3000/delta hrp 12h	0.99692	1
DC3000/delta hrp 24h	1.04641	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.52382	0.023
DC3000 delta B/DC3000 delta AB	7.26781	0.256

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03282	1
Exp 36h	1.07758	1
Exp 60h	1.01723	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98544	1
Var 0h	0.89841	0.933
Var 12h I row2-row1	0.79962	0.418
Var 12h NI row2-row1	0.98706	1
Var 36h I row2-row1	0.96625	1
Var 36h NI row2-row1	1.0588	1
Var 60h I row2-row1	1.0847
Var 60h NI row2-row1	1.17793	0.904
Time course 0hI-0hNI	0.99234	1
Time course 12hI-12hNI	0.84383	0.101
Time course 36hI-36hNI	0.76266	0.023
Time course 60hI-60hNI	0.2556	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)	0.90573	0.309
transgenic ySAMdc/azygous control (breaker)	1.06689	0.178
transgenic ySAMdc/azygous control (red)	1.04887	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92649	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33665	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.7038	0.307
Manapal/WT (break)	1.37693	0.183
Manapal/WT (red)	1.11832	0.413