Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.8.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1392	0.812
27DAP/17DAP	1.31561	0.742
39DAP/27DAP	0.60717	0.449
41DAP/39DAP	1.12576	0.663
42DAP/41DAP	1.25293	0.773
43DAP/42DAP	1.18016	0.861
47DAP/43DAP	1.01474	0.98
52DAP/47DAP	0.72282	0.228
57DAP/52DAP	1.10699	0.955

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94604	0.3
17DAP/reference	0.89937	0.194
27DAP/reference	1.01432	0.806
39DAP/reference	1.0261	0.734
41DAP/reference	1.0777	0.587
42DAP/reference	1.07357	0.241
43DAP/reference	1.1774	0.04
47DAP/reference	1.16443	0.078
52DAP/reference	1.17339	0.286
57DAP/reference	1.20131	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97731	0.716
27DAP/17DAP	1.18548	0.426
39DAP/27DAP	1.45385	0.062
41DAP/39DAP	0.9365	0.839
42DAP/41DAP	1.09648	0.615
43DAP/42DAP	1.41797	0.025
47DAP/43DAP	1.16933	0.69
52DAP/47DAP	1.02086	0.915
57DAP/52DAP	0.9472	0.494
57DAP/7DAP	1.22214	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05934	0.65
17DAP/reference	1.04188	0.437
27DAP/reference	0.96139	0.325
39DAP/reference	1.11081	0.014
41DAP/reference	1.07644	0.524
42DAP/reference	0.986	0.458
43DAP/reference	0.97761	0.385
47DAP/reference	1.21269	0.169
52DAP/reference	1.05219	0.636
57DAP/reference	1.02542	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83568	0.096
17DAP/reference	0.82764	0.009
27DAP/reference	0.913	0.34
39DAP/reference	0.87489	0.227
41DAP/reference	0.90996	0.277
42DAP/reference	0.96737	0.392
43DAP/reference	1.02653	1
47DAP/reference	1.03869	0.816
52DAP/reference	0.90612	0.22
57DAP/reference	0.81134	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00974	1
17DAP/reference	1.08171	0.775
27DAP/reference	1.08668	0.575
39DAP/reference	0.96691	0.544
41DAP/reference	1.02362	0.867
42DAP/reference	1.01017	0.979
43DAP/reference	1.07292	0.396
47DAP/reference	1.19017	0.239
52DAP/reference	1.13557	0.735
57DAP/reference	1.06893	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.44998	0.966
26DAP/20DAP	0.90278	1
34DAP/26DAP	1.19283	0.542
51DAP/34DAP	0.98958	0.917
52DAP/51DAP	1.02469	0.842
53DAP/52DAP	1.10064	0.274
55DAP/53DAP	2.30922	0.722
57DAP/55DAP	1.05775	0.947
62DAP/57DAP	0.9366	0.681
68DAP/62DAP	1.72697	0.091
68DAP/14DAP	0.87222	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18949	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.45927	0.033
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.20694	0.224
Mature Eggplant/Ripe Tomato	0.1228	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.80278	0.591
1-1-2/M82	1.42339	0.977
12-2/M82	1.00237	1
12-4/M82	1.13684	1
1-3/M82	1.71962	0.248
2-1-1/M82	1.19248	0.764
2-1/M82	1.00711	1
2-6/M82	1.46566	0.329
3-2/M82	0.90106	1
4-1-1/M82	1.36469	0.876
4-1/M82	1.01431	1
4-3-2/M82	1.35198	0.508
4-3/M82	1.90952	0.268
5-3/M82	1.15204	1
6-2/M82	0.88878	0.497
6-3/M82	0.95638	1
7-1/M82	0.93723	1
7-2/M82	1.52799	0.299
9-3-2/M82	1.20251	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.13306	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0998
IL12-4/WTpooled	0.8197	0.554
IL1-4/WTpooled	1.1061
WT/WTpooled	0.91822	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	0.87974	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03246	0.921
DC3000/delta hrp 6h	1.22887	1
DC3000/delta hrp 12h	0.9302	1
DC3000/delta hrp 24h	0.84744	0.079

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94733	0.92
DC3000 delta B/DC3000 delta AB	0.91779	0.307

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04669	1
Var 0h	1.05253	0.98
Var 12h I row2-row1	0.91994	0.565
Var 12h NI row2-row1	0.96376	0.713
Var 36h I row2-row1	1.20559	0.908
Var 36h NI row2-row1	1.05812	1
Var 60h I row2-row1	1.11898	0.543
Var 60h NI row2-row1	1.00372	1
Time course 0hI-0hNI	0.98227	0.945
Time course 12hI-12hNI	0.93525	0.515
Time course 36hI-36hNI	0.89369	0.028
Time course 60hI-60hNI	0.59604	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)	0.88254	0.32
transgenic ySAMdc/azygous control (breaker)	1.35686	0.248
transgenic ySAMdc/azygous control (red)	1.60227	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98795	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32652	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.87824	1
Manapal/WT (red)	0.69039	0.181