Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14122	0.512
27DAP/17DAP	1.03667	0.92
39DAP/27DAP	1.36509	0.907
41DAP/39DAP	0.72776	0.171
42DAP/41DAP	0.95803	1
43DAP/42DAP	0.86604	0.598
47DAP/43DAP	1.15015	0.702
52DAP/47DAP	1.05947	0.933
57DAP/52DAP	0.77408	0.852

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.46732	0.17
17DAP/reference	0.98319	0.737
27DAP/reference	1.1579	0.299
39DAP/reference	0.82476	0.159
41DAP/reference	0.91756
42DAP/reference	1.39797	0.045
43DAP/reference	1.13333	0.705
47DAP/reference	1.11771	0.34
52DAP/reference	1.20281	0.036
57DAP/reference	1.50258	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0485	0.619
27DAP/17DAP	1.05826	0.885
39DAP/27DAP	0.92857	0.587
41DAP/39DAP	0.97519	0.959
42DAP/41DAP	1.05735	0.354
43DAP/42DAP	0.98944	0.801
47DAP/43DAP	1.03831	0.822
52DAP/47DAP	0.95072	0.868
57DAP/52DAP	0.99046	0.848
57DAP/7DAP	0.8998	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27547	0.071
17DAP/reference	1.33025	0.011
27DAP/reference	1.52755	0.008
39DAP/reference	1.19423	0.186
41DAP/reference	1.11608	0.031
42DAP/reference	1.14377	0.076
43DAP/reference	1.1612	0.256
47DAP/reference	N/A	N/A
52DAP/reference	1.60526	0.081
57DAP/reference	1.80629	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34427
17DAP/reference	0.88846	0.164
27DAP/reference	1.24125	0.192
39DAP/reference	1.40285	0.038
41DAP/reference	1.51396	0.149
42DAP/reference	1.14385	0.226
43DAP/reference	1.22839	0.489
47DAP/reference	0.97666	0.543
52DAP/reference	1.9576	0.061
57DAP/reference	1.25145	0.277

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42574	0.046
17DAP/reference	1.31348	0.169
27DAP/reference	1.76971	0.02
39DAP/reference	1.44241	0.227
41DAP/reference	1.59376	0.012
42DAP/reference	2.14039	0.021
43DAP/reference	1.79036	0.057
47DAP/reference	1.27273	0.519
52DAP/reference	1.56142
57DAP/reference	1.72649	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	2.68565	0.192
34DAP/26DAP	1.64771	0.819
51DAP/34DAP	0.8247
52DAP/51DAP	1.03736	0.836
53DAP/52DAP	0.95622	0.924
55DAP/53DAP	0.94499
57DAP/55DAP	0.73776
62DAP/57DAP	1.23936	0.515
68DAP/62DAP	1.18252	0.31
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99185	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.59863	0.038
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.62647

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.1579	1
12-2/M82	1.28926
12-4/M82	1.04076	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
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	0.76953	0.72
5-3/M82	0.89897	0.447
6-2/M82	N/A	N/A
6-3/M82	0.80134
7-1/M82	1.14029
7-2/M82	0.76962
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01941	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99081	1
IL12-4/WTpooled	1.28292	0.523
IL1-4/WTpooled	1.11191	1
WT/WTpooled	0.96118	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	0.9564	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92176	1
DC3000/delta hrp 6h	1.09215	1
DC3000/delta hrp 12h	1.07285	1
DC3000/delta hrp 24h	0.58277	0.037

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.81808
DC3000 delta B/DC3000 delta AB	0.88385	0.47

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92899	1
Exp 36h	0.53424	0.449
Exp 60h	0.61464	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.18405	1
Var 0h	1.33469	0.374
Var 12h I row2-row1	1.20518	0.736
Var 12h NI row2-row1	1.29737	1
Var 36h I row2-row1	1.01935	1
Var 36h NI row2-row1	1.12167	1
Var 60h I row2-row1	1.1337	1
Var 60h NI row2-row1	1.008	1
Time course 0hI-0hNI	0.85432	0.294
Time course 12hI-12hNI	0.9724	0.836
Time course 36hI-36hNI	1.15129	0.722
Time course 60hI-60hNI	1.37472	0.08

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)	1.24101	0.221
transgenic ySAMdc/azygous control (breaker)	0.38044	0.139
transgenic ySAMdc/azygous control (red)	2.04082	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.64017	0.025

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11269	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.3348	0.093
Manapal/WT (break)	4.95917	0.381
Manapal/WT (red)	1.13829	1