Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09503	0.545
27DAP/17DAP	1.12661	0.844
39DAP/27DAP	0.80096	0.449
41DAP/39DAP	1.39162	0.426
42DAP/41DAP	0.78689	0.774
43DAP/42DAP	0.93065	0.854
47DAP/43DAP	1.09815	0.584
52DAP/47DAP	1.10139	0.891
57DAP/52DAP	1.16017	0.883

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94216	0.064
17DAP/reference	1.05105	0.083
27DAP/reference	1.04801	0.365
39DAP/reference	1.00503	0.857
41DAP/reference	1.01405	0.808
42DAP/reference	0.92475	0.048
43DAP/reference	1.00333	1
47DAP/reference	0.94653	0.032
52DAP/reference	0.78037	0.058
57DAP/reference	0.8954	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00919	0.961
27DAP/17DAP	0.97688	0.854
39DAP/27DAP	1.01997	0.751
41DAP/39DAP	1.10517	0.469
42DAP/41DAP	0.9866	0.823
43DAP/42DAP	0.95732	0.415
47DAP/43DAP	0.97896	0.815
52DAP/47DAP	0.96366	0.763
57DAP/52DAP	1.03806	0.732
57DAP/7DAP	1.03122	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90592	0.066
17DAP/reference	0.95304	0.035
27DAP/reference	0.91098	0.011
39DAP/reference	0.97698	0.307
41DAP/reference	0.9672	0.166
42DAP/reference	0.98097	0.355
43DAP/reference	0.97358	0.305
47DAP/reference	0.92283	0.222
52DAP/reference	0.94829	0.106
57DAP/reference	0.94871	0.105

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02641	0.589
17DAP/reference	0.91314	0.182
27DAP/reference	0.83742	0.058
39DAP/reference	0.87926	0.095
41DAP/reference	0.92276	0.256
42DAP/reference	1.01946	1
43DAP/reference	0.9396	0.314
47DAP/reference	1.1299	0.128
52DAP/reference	0.88395	0.034
57DAP/reference	0.9246	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94966	0.071
17DAP/reference	0.97478	0.571
27DAP/reference	0.99386	0.727
39DAP/reference	0.95481	0.023
41DAP/reference	0.92755	0.05
42DAP/reference	0.88058	0.108
43DAP/reference	0.8923	0.088
47DAP/reference	0.94599	0.348
52DAP/reference	0.93904	0.405
57DAP/reference	0.78762	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99887	1
26DAP/20DAP	0.95279	0.512
34DAP/26DAP	0.96991	0.874
51DAP/34DAP	0.93984	0.428
52DAP/51DAP	0.99355	1
53DAP/52DAP	0.98921	0.97
55DAP/53DAP	0.89326	0.169
57DAP/55DAP	0.96536	0.839
62DAP/57DAP	1.02714	0.935
68DAP/62DAP	1.09042	0.885
68DAP/14DAP	0.89115	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97926	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12843	0.176
Mature Green Tomato/Ripe Tomato	0.76232	0.287
Immature Eggplant/Mature Eggplant	1.10018	0.321
Ripe Pepper/Ripe Tomato	0.58673	0.224
Mature Eggplant/Ripe Tomato	0.98414	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97737	0.944
1-1-2/M82	0.99538	1
12-2/M82	0.98647	1
12-4/M82	0.91483	1
1-3/M82	0.98524	1
2-1-1/M82	1.02858	1
2-1/M82	1.17033	1
2-6/M82	1.02659	1
3-2/M82	1.03113
4-1-1/M82	0.96927	1
4-1/M82	1.03541	1
4-3-2/M82	0.90779	1
4-3/M82	1.0481	1
5-3/M82	1.02923	0.572
6-2/M82	1.09446	1
6-3/M82	0.95646	0.857
7-1/M82	0.86868	0.509
7-2/M82	1.08224	1
9-3-2/M82	0.83481	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.35819	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9681	1
DC3000/delta hrp 6h	0.96295	0.95
DC3000/delta hrp 12h	1.06862	1
DC3000/delta hrp 24h	1.05778	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14329	0.042
DC3000 delta B/DC3000 delta AB	1.11009	0.336

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0959	0.227
Exp 36h	1.05854	1
Exp 60h	1.14481	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00545	1
Var 0h	0.85863	0.933
Var 12h I row2-row1	1.13303	0.208
Var 12h NI row2-row1	1.04645	1
Var 36h I row2-row1	1.00242	1
Var 36h NI row2-row1	0.87118	0.45
Var 60h I row2-row1	1.22677	1
Var 60h NI row2-row1	1.096	1
Time course 0hI-0hNI	1.03111	1
Time course 12hI-12hNI	1.07529	0.544
Time course 36hI-36hNI	1.06965	0.218
Time course 60hI-60hNI	1.56348	0.008

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)	0.98466	0.614
transgenic ySAMdc/azygous control (breaker)	1.05119	1
transgenic ySAMdc/azygous control (red)	1.01348	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02162	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77243	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90189	1
Manapal/WT (break)	0.82535	0.333
Manapal/WT (red)	1.07971	1