Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16502	0.646
27DAP/17DAP	0.82854	0.513
39DAP/27DAP	1.19332	0.864
41DAP/39DAP	0.76288	0.141
42DAP/41DAP	0.94772	1
43DAP/42DAP	1.18186	0.712
47DAP/43DAP	1.34229	0.364
52DAP/47DAP	0.79396	0.494
57DAP/52DAP	0.85121	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32526	0.02
17DAP/reference	1.50098	0.02
27DAP/reference	1.42179	0.018
39DAP/reference	1.20373	0.581
41DAP/reference	1.49878	0.015
42DAP/reference	1.34661	0.025
43DAP/reference	1.124	0.445
47DAP/reference	1.21136	0.075
52DAP/reference	1.22232	0.186
57DAP/reference	0.75495	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.51024	0.036
27DAP/17DAP	0.90964	0.475
39DAP/27DAP	0.73736	0.058
41DAP/39DAP	0.8807	0.53
42DAP/41DAP	1.06824	0.81
43DAP/42DAP	0.90387	0.235
47DAP/43DAP	0.86434	0.134
52DAP/47DAP	1.04893	0.862
57DAP/52DAP	0.81023	0.241
57DAP/7DAP	0.78342	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1192	0.491
17DAP/reference	1.15682	0.525
27DAP/reference	1.13333	0.197
39DAP/reference	1.21976	0.133
41DAP/reference	0.99969	0.538
42DAP/reference	0.89534	0.178
43DAP/reference	1.00951	0.727
47DAP/reference	1.04755	0.732
52DAP/reference	0.99795	0.621
57DAP/reference	1.20216	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28285	0.12
17DAP/reference	1.60445	0.036
27DAP/reference	1.38904	0.019
39DAP/reference	1.30281	0.061
41DAP/reference	1.30979	0.024
42DAP/reference	1.1625	0.254
43DAP/reference	1.15034	0.647
47DAP/reference	1.1923	0.012
52DAP/reference	1.31283	0.026
57DAP/reference	1.40503	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29964	0.062
17DAP/reference	1.22336	0.182
27DAP/reference	1.33073	0.03
39DAP/reference	1.36183	0.05
41DAP/reference	1.26727	0.156
42DAP/reference	1.16767	0.131
43DAP/reference	1.09261	0.688
47DAP/reference	1.51575	0.007
52DAP/reference	1.19921	0.457
57DAP/reference	1.07052	0.522

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96216	1
26DAP/20DAP	0.75291	0.512
34DAP/26DAP	1.37752	0.819
51DAP/34DAP	0.56776	0.06
52DAP/51DAP	0.9516	1
53DAP/52DAP	0.86066	0.259
55DAP/53DAP	0.75209	0.022
57DAP/55DAP	1.3971	0.037
62DAP/57DAP	0.88962	0.681
68DAP/62DAP	0.48549	0.048
68DAP/14DAP	0.69584	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86236	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97306	0.783
Mature Green Tomato/Ripe Tomato	1.74591	0.077
Immature Eggplant/Mature Eggplant	0.64659	0.064
Ripe Pepper/Ripe Tomato	2.07285	1
Mature Eggplant/Ripe Tomato	2.58295	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95467	0.736
1-1-2/M82	1.40037	1
12-2/M82	1.07406
12-4/M82	1.22595	1
1-3/M82	1.02157	1
2-1-1/M82	1.07396	1
2-1/M82	1.41728
2-6/M82	1.16179	0.405
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.05739	1
4-3-2/M82	1.28151	1
4-3/M82	1.05344	1
5-3/M82	1.20986	0.572
6-2/M82	0.75325
6-3/M82	1.03479	1
7-1/M82	1.12405	1
7-2/M82	1.01378	1
9-3-2/M82	1.60208	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06523	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.4305	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.90871
IL1-4/WTpooled	1.05971	0.426
WT/WTpooled	N/A	N/A

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	0.98448	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07259	0.692
DC3000/delta hrp 6h	1.04119	1
DC3000/delta hrp 12h	1.15492	1
DC3000/delta hrp 24h	0.95736	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.70564	0.027
DC3000 delta B/DC3000 delta AB	0.69416	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25871	1
Exp 36h	0.68703	0.406
Exp 60h	0.78832	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99858	1
Var 0h	0.94343	1
Var 12h I row2-row1	0.80656	0.363
Var 12h NI row2-row1	0.84958	0.494
Var 36h I row2-row1	1.04794	0.908
Var 36h NI row2-row1	1.25484	0.482
Var 60h I row2-row1	1.20819	0.562
Var 60h NI row2-row1	1.02763	1
Time course 0hI-0hNI	1.0264	0.867
Time course 12hI-12hNI	0.97771	0.87
Time course 36hI-36hNI	0.90192	0.129
Time course 60hI-60hNI	0.18141	0.005

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)	1.22158	0.318
transgenic ySAMdc/azygous control (breaker)	1.11588	1
transgenic ySAMdc/azygous control (red)	0.98263	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06687	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27651	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07463	1
Manapal/WT (break)	1.61455	0.183
Manapal/WT (red)	1.28855	0.413