Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.10.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90504	0.511
27DAP/17DAP	0.74501	0.272
39DAP/27DAP	1.06759	0.84
41DAP/39DAP	1.11136	0.772
42DAP/41DAP	2.20261	0.023
43DAP/42DAP	0.93791	0.806
47DAP/43DAP	1.09007	0.889
52DAP/47DAP	1.03836	0.777
57DAP/52DAP	0.78139	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78516	0.077
17DAP/reference	0.77435	0.018
27DAP/reference	0.83895	0.157
39DAP/reference	0.96022	0.565
41DAP/reference	0.95936	0.542
42DAP/reference	1.03494	0.842
43DAP/reference	1.50721	0.014
47DAP/reference	1.48524	0.01
52DAP/reference	1.07672	0.43
57DAP/reference	0.92512	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4185	0.036
27DAP/17DAP	0.79698	0.295
39DAP/27DAP	1.06565	0.758
41DAP/39DAP	0.99463	1
42DAP/41DAP	1.31828	0.049
43DAP/42DAP	1.432	0.086
47DAP/43DAP	0.86345	0.239
52DAP/47DAP	0.97523	0.902
57DAP/52DAP	0.90043	0.541
57DAP/7DAP	1.35887	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81658	0.129
17DAP/reference	1.0515	0.134
27DAP/reference	0.96272	0.375
39DAP/reference	0.83967	0.043
41DAP/reference	0.76586	0.047
42DAP/reference	0.85423	0.09
43DAP/reference	1.03755	0.637
47DAP/reference	0.75434	0.066
52DAP/reference	0.86178	0.072
57DAP/reference	1.01287	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88603	0.286
17DAP/reference	0.87498	0.23
27DAP/reference	0.69969	0.064
39DAP/reference	0.66182	0.014
41DAP/reference	0.59424	0.028
42DAP/reference	0.88099	0.089
43DAP/reference	0.7523	0.062
47DAP/reference	1.02607	1
52DAP/reference	0.57653	0.012
57DAP/reference	0.67454	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81925	0.043
17DAP/reference	0.88594	0.292
27DAP/reference	1.02421	1
39DAP/reference	0.95264	0.393
41DAP/reference	0.94483	0.417
42DAP/reference	1.30831	0.184
43DAP/reference	1.25614	0.045
47DAP/reference	1.36875	0.155
52DAP/reference	1.24995	0.095
57DAP/reference	0.84999	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79455	0.787
26DAP/20DAP	1.47307	0.21
34DAP/26DAP	1.09634	1
51DAP/34DAP	1.42684	0.053
52DAP/51DAP	0.87237	1
53DAP/52DAP	0.93673	0.703
55DAP/53DAP	0.70687	0.072
57DAP/55DAP	1.12944	0.927
62DAP/57DAP	0.87799	0.466
68DAP/62DAP	0.75494	0.505
68DAP/14DAP	0.62236

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30603	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86992	0.364
Mature Green Tomato/Ripe Tomato	0.654	0.107
Immature Eggplant/Mature Eggplant	0.66514
Ripe Pepper/Ripe Tomato	1.31487	1
Mature Eggplant/Ripe Tomato	0.7448	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.56812	0.574
1-1-2/M82	1.19984	1
12-2/M82	0.83217	0.625
12-4/M82	0.79128	0.358
1-3/M82	1.98646	0.479
2-1-1/M82	0.99104	1
2-1/M82	0.77456	0.74
2-6/M82	1.67123	0.329
3-2/M82	1.07585
4-1-1/M82	0.94363
4-1/M82	0.80493
4-3-2/M82	2.80157	0.241
4-3/M82	2.40143	1
5-3/M82	0.90478	1
6-2/M82	N/A	N/A
6-3/M82	1.07763	1
7-1/M82	1.07969	1
7-2/M82	1.67365	0.324
9-3-2/M82	2.57189	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.89742	1
IL7-5/WTpooled	1.02071
IL7-3/WTpooled	1.01849	1
IL12-4/WTpooled	0.63278	0.581
IL1-4/WTpooled	1.18952	1
WT/WTpooled	0.88383	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	0.96998	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03216	1
DC3000/delta hrp 6h	0.99267	0.95
DC3000/delta hrp 12h	1.08049	1
DC3000/delta hrp 24h	0.95192	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.90264

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.06954	1
Exp 60h	0.75542	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00318	1
Var 0h	1.02728	1
Var 12h I row2-row1	0.81387	0.363
Var 12h NI row2-row1	0.99241	1
Var 36h I row2-row1	1.06607	0.908
Var 36h NI row2-row1	1.12973	0.482
Var 60h I row2-row1	1.16808	0.562
Var 60h NI row2-row1	0.88383	0.932
Time course 0hI-0hNI	1.0355	0.833
Time course 12hI-12hNI	0.95742	0.606
Time course 36hI-36hNI	1.07298	0.401
Time course 60hI-60hNI	0.90016	0.161

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)	1.18828	0.511
transgenic ySAMdc/azygous control (breaker)	1.10071	1
transgenic ySAMdc/azygous control (red)	1.11598	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02308	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96511	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.62542	0.084
Manapal/WT (break)	0.86595	0.333
Manapal/WT (red)	1.4474	0.164