Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.18.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02983	0.975
27DAP/17DAP	1.27568	0.845
39DAP/27DAP	0.97655	0.749
41DAP/39DAP	0.72793	0.145
42DAP/41DAP	1.01825	1
43DAP/42DAP	1.04822	1
47DAP/43DAP	1.10007	0.49
52DAP/47DAP	1.20733	0.545
57DAP/52DAP	1.07326	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12838	0.384
17DAP/reference	0.7413	0.021
27DAP/reference	0.81462	0.089
39DAP/reference	0.74925	0.085
41DAP/reference	0.66405	0.026
42DAP/reference	1.76935	0.001
43DAP/reference	1.24599	0.023
47DAP/reference	1.23622	0.004
52DAP/reference	1.01103	0.668
57DAP/reference	1.08195	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99655	0.826
27DAP/17DAP	1.0658	0.751
39DAP/27DAP	0.94733	0.572
41DAP/39DAP	1.08259	0.773
42DAP/41DAP	1.02681	0.81
43DAP/42DAP	0.87201	0.054
47DAP/43DAP	0.98042	0.877
52DAP/47DAP	0.98104	0.902
57DAP/52DAP	1.12534	0.543
57DAP/7DAP	1.09112	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04284	1
17DAP/reference	0.92493	0.253
27DAP/reference	0.90321	0.159
39DAP/reference	0.87794	0.17
41DAP/reference	0.85237	0.146
42DAP/reference	0.90118	0.222
43DAP/reference	0.97537	0.48
47DAP/reference	1.30342	0.158
52DAP/reference	0.813	0.023
57DAP/reference	0.92573	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22133	0.289
17DAP/reference	1.20736	0.203
27DAP/reference	1.59093	0.04
39DAP/reference	1.19797	0.424
41DAP/reference	1.36458	0.037
42DAP/reference	1.21716	0.012
43DAP/reference	0.89446	0.307
47DAP/reference	0.85747	0.025
52DAP/reference	0.66103	0.004
57DAP/reference	0.67201	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98246	0.607
17DAP/reference	0.86374	0.092
27DAP/reference	0.90083	0.218
39DAP/reference	0.9896	0.693
41DAP/reference	0.95622	0.417
42DAP/reference	1.13915	1
43DAP/reference	1.88125	0.25
47DAP/reference	1.0608	1
52DAP/reference	1.3148	0.172
57DAP/reference	1.33361	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.944	0.966
26DAP/20DAP	1.00718	1
34DAP/26DAP	0.93412	0.834
51DAP/34DAP	1.38737	0.121
52DAP/51DAP	1.21318	0.121
53DAP/52DAP	1.29512	0.038
55DAP/53DAP	0.91051	0.252
57DAP/55DAP	0.93534	0.684
62DAP/57DAP	0.70666	0.003
68DAP/62DAP	1.16841	0.767
68DAP/14DAP	1.05408	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24319	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.72979	0.203
Mature Green Tomato/Ripe Tomato	0.90357	0.377
Immature Eggplant/Mature Eggplant	1.16342	0.116
Ripe Pepper/Ripe Tomato	0.72143	1
Mature Eggplant/Ripe Tomato	0.47121	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05869	1
1-1-2/M82	1.02314	1
12-2/M82	N/A	N/A
12-4/M82	0.96618	1
1-3/M82	1.43497
2-1-1/M82	0.86176
2-1/M82	1.76518
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	0.35549
4-1/M82	1.16722	1
4-3-2/M82	0.99902
4-3/M82	1.12298	1
5-3/M82	0.94631	1
6-2/M82	N/A	N/A
6-3/M82	1.09778	1
7-1/M82	1.17313
7-2/M82	0.982
9-3-2/M82	1.24717	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98549
IL2-6/WTpooled	1.08676
IL7-5/WTpooled	1.06875
IL7-3/WTpooled	1.15097	1
IL12-4/WTpooled	1.13596	0.785
IL1-4/WTpooled	0.8643
WT/WTpooled	0.97587	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	1.44777	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95885	1
DC3000/delta hrp 6h	0.87762	0.95
DC3000/delta hrp 12h	1.37886	1
DC3000/delta hrp 24h	1.14761	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15188	0.16
DC3000 delta B/DC3000 delta AB	1.20401	0.156

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23059	0.254
Exp 36h	1.12214	1
Exp 60h	1.21946	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01413	1
Var 0h	1.00512	1
Var 12h I row2-row1	0.85924	0.338
Var 12h NI row2-row1	0.95342	0.906
Var 36h I row2-row1	1.03823	1
Var 36h NI row2-row1	0.94736	0.549
Var 60h I row2-row1	0.88257	0.293
Var 60h NI row2-row1	0.8835	0.572
Time course 0hI-0hNI	1.03853	0.833
Time course 12hI-12hNI	1.04682	0.779
Time course 36hI-36hNI	1.17256	0.016
Time course 60hI-60hNI	1.49269	0.009

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)	1.19254	0.297
transgenic ySAMdc/azygous control (breaker)	0.83819	0.251
transgenic ySAMdc/azygous control (red)	0.97554	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.22242	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68229	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.22003	0.14
Manapal/WT (break)	1.21758	0.381
Manapal/WT (red)	1.01953	1