Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03272	0.83
27DAP/17DAP	0.6431	0.117
39DAP/27DAP	0.96481	0.641
41DAP/39DAP	0.80084	0.346
42DAP/41DAP	0.84368	1
43DAP/42DAP	1.78673	0.204
47DAP/43DAP	0.70831	0.231
52DAP/47DAP	1.00546	0.942
57DAP/52DAP	1.41641	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36193	0.015
17DAP/reference	1.3249	0.083
27DAP/reference	1.36613	0.03
39DAP/reference	1.3177	0.335
41DAP/reference	1.61422	0.015
42DAP/reference	1.41881	0.001
43DAP/reference	1.10308	0.252
47DAP/reference	1.32512	0.002
52DAP/reference	1.56288	0.036
57DAP/reference	1.13094	0.433

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76082	0.135
27DAP/17DAP	0.91229	0.748
39DAP/27DAP	0.47093	0.028
41DAP/39DAP	1.29987	0.077
42DAP/41DAP	0.875	0.236
43DAP/42DAP	0.67751	0.039
47DAP/43DAP	1.01205	1
52DAP/47DAP	1.03672	0.868
57DAP/52DAP	1.10806	0.657
57DAP/7DAP	0.52337	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87435	0.168
17DAP/reference	1.00495	0.693
27DAP/reference	0.77296	0.048
39DAP/reference	0.97793	0.474
41DAP/reference	0.70345	0.019
42DAP/reference	0.93584	0.371
43DAP/reference	0.98997	0.608
47DAP/reference	1.02059	1
52DAP/reference	0.85886	0.179
57DAP/reference	0.86086	0.097

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98984	0.736
17DAP/reference	1.24361	0.044
27DAP/reference	1.25524	0.217
39DAP/reference	1.12439	0.686
41DAP/reference	1.08005	0.846
42DAP/reference	1.25129	0.019
43DAP/reference	1.28519	0.179
47DAP/reference	1.1574	0.108
52DAP/reference	1.27552	0.069
57DAP/reference	1.17291	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11149	0.809
17DAP/reference	1.03896	0.932
27DAP/reference	0.9618	0.539
39DAP/reference	0.89319	0.271
41DAP/reference	0.78911	0.077
42DAP/reference	1.02657	1
43DAP/reference	0.87499	0.294
47DAP/reference	1.28325	0.218
52DAP/reference	0.93731	0.551
57DAP/reference	0.89711	0.299

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.75044	0.981
26DAP/20DAP	0.7795	0.512
34DAP/26DAP	1.14303	0.542
51DAP/34DAP	0.94689	0.681
52DAP/51DAP	1.13836	0.304
53DAP/52DAP	0.94685	0.695
55DAP/53DAP	1.0954	0.703
57DAP/55DAP	1.04348	0.969
62DAP/57DAP	1.01463	1
68DAP/62DAP	0.73462	0.429
68DAP/14DAP	0.60912	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89738	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	12.6695	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.56114	1
Mature Eggplant/Ripe Tomato	2.39564	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.156
1-1-2/M82	0.92732	0.958
12-2/M82	0.84058
12-4/M82	1.15862	1
1-3/M82	0.71559
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.11086
3-2/M82	0.87899	1
4-1-1/M82	0.96296
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.6579
5-3/M82	0.88695	1
6-2/M82	1.15039
6-3/M82	N/A	N/A
7-1/M82	1.24944
7-2/M82	1.45071
9-3-2/M82	0.82129

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73913	0.247
IL2-6/WTpooled	1.03056	0.788
IL7-5/WTpooled	1.22284	0.792
IL7-3/WTpooled	0.87546	0.418
IL12-4/WTpooled	1.03419	0.525
IL1-4/WTpooled	1.00186	1
WT/WTpooled	0.99767	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	0.9622	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94557	1
DC3000/delta hrp 6h	1.32038
DC3000/delta hrp 12h	0.58172
DC3000/delta hrp 24h	1.17256	0.059

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.49885	0.031
DC3000 delta B/DC3000 delta AB	0.39958	0.02

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	1.01383	1
Var 0h	0.86563	0.933
Var 12h I row2-row1	0.7278	0.338
Var 12h NI row2-row1	0.93026	0.627
Var 36h I row2-row1	0.73678	0.805
Var 36h NI row2-row1	1.05108	1
Var 60h I row2-row1	1.46786	0.543
Var 60h NI row2-row1	0.94316	0.818
Time course 0hI-0hNI	1.01597	0.764
Time course 12hI-12hNI	1.04384	0.668
Time course 36hI-36hNI	0.96912	0.418
Time course 60hI-60hNI	0.32505	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)	0.9256	0.614
transgenic ySAMdc/azygous control (breaker)	0.73123	0.173
transgenic ySAMdc/azygous control (red)	0.83226	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85504	0.081

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13543	1

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)	N/A	N/A
Manapal/WT (red)	1.22746	0.413