Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.17.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.59237	0.615
27DAP/17DAP	1.2367	0.799
39DAP/27DAP	1.11938	0.933
41DAP/39DAP	1.20024	0.844
42DAP/41DAP	1.08695	1
43DAP/42DAP	1.20547	1
47DAP/43DAP	1.48587	0.208
52DAP/47DAP	1.04336	0.983
57DAP/52DAP	1.02259	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12295	0.9
17DAP/reference	0.73242	0.097
27DAP/reference	0.95803	0.694
39DAP/reference	0.95966	0.855
41DAP/reference	0.99384	1
42DAP/reference	1.09296	0.756
43DAP/reference	1.08442	1
47DAP/reference	1.21076	0.207
52DAP/reference	1.05963	0.951
57DAP/reference	1.12578	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58836	0.07
27DAP/17DAP	1.15042	0.573
39DAP/27DAP	1.64707	0.086
41DAP/39DAP	0.687	0.022
42DAP/41DAP	1.09937	0.663
43DAP/42DAP	1.16006	0.554
47DAP/43DAP	0.9279	0.647
52DAP/47DAP	1.26075	0.362
57DAP/52DAP	1.48923	0.082
57DAP/7DAP	1.46043	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8415	0.138
17DAP/reference	0.65969	0.013
27DAP/reference	0.97397	0.571
39DAP/reference	0.66388	0.025
41DAP/reference	0.97919	0.489
42DAP/reference	0.74956	0.06
43DAP/reference	0.85867	0.026
47DAP/reference	0.91313	0.504
52DAP/reference	0.65326	0.019
57DAP/reference	0.83154	0.086

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08305	0.741
17DAP/reference	0.86871	0.399
27DAP/reference	1.08736	0.711
39DAP/reference	1.01441	0.682
41DAP/reference	0.95277	0.403
42DAP/reference	0.73523	0.022
43DAP/reference	1.45906	0.195
47DAP/reference	1.17007	0.513
52DAP/reference	1.0154	0.619
57DAP/reference	0.98604	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68776	0.054
17DAP/reference	1.12089	0.503
27DAP/reference	0.9801	0.624
39DAP/reference	1.02258	0.962
41DAP/reference	0.83882	0.107
42DAP/reference	1.17425	0.47
43DAP/reference	0.81079	0.098
47DAP/reference	0.98092	0.494
52DAP/reference	0.96223	0.529
57DAP/reference	1.13757	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7268	0.841
26DAP/20DAP	0.83433	1
34DAP/26DAP	1.29839	0.819
51DAP/34DAP	1.84265	0.053
52DAP/51DAP	0.73454	0.151
53DAP/52DAP	1.43311	0.083
55DAP/53DAP	0.79501	0.111
57DAP/55DAP	0.96128	0.754
62DAP/57DAP	0.85723	0.466
68DAP/62DAP	0.72893	0.033
68DAP/14DAP	0.4656	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.52198	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.62356	0.023
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.30746
Mature Eggplant/Ripe Tomato	1.83916	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	2.70094	0.536
1-1-2/M82	0.92772	1
12-2/M82	1.03757	1
12-4/M82	1.47964	1
1-3/M82	2.31544	0.26
2-1-1/M82	1.13636	1
2-1/M82	1.41379	1
2-6/M82	0.65592	0.501
3-2/M82	1.13054
4-1-1/M82	0.99783	1
4-1/M82	0.74068	0.737
4-3-2/M82	0.74518	0.487
4-3/M82	2.15	1
5-3/M82	1.12324	0.572
6-2/M82	0.68124	0.497
6-3/M82	1.12266	1
7-1/M82	0.97989	1
7-2/M82	1.97638
9-3-2/M82	0.95131	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1365	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05386	1
IL12-4/WTpooled	0.99533	1
IL1-4/WTpooled	0.99654	1
WT/WTpooled	1.09904	0.855

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	1.14593	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08568	0.894
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.3155
DC3000/delta hrp 24h	0.97829	0.978

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	1.0105	1
Var 0h	1.10067	1
Var 12h I row2-row1	1.11562	0.196
Var 12h NI row2-row1	1.01289	1
Var 36h I row2-row1	1.10813	0.908
Var 36h NI row2-row1	0.85326	0.743
Var 60h I row2-row1	1.08953	0.543
Var 60h NI row2-row1	1.25569	0.904
Time course 0hI-0hNI	1.01012	1
Time course 12hI-12hNI	1.33879	0.415
Time course 36hI-36hNI	0.92731	0.418
Time course 60hI-60hNI	0.89877	0.081

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39788	0.239

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)	1.06359	0.13
Manapal/WT (red)	1.22991	1