Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.10.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.80384	0.303
27DAP/17DAP	1.38375	0.761
39DAP/27DAP	1.21283	0.453
41DAP/39DAP	0.71879	0.119
42DAP/41DAP	1.11801	0.903
43DAP/42DAP	0.92641	0.833
47DAP/43DAP	1.15967	0.647
52DAP/47DAP	0.85559	0.595
57DAP/52DAP	1.14934	0.873

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97834	0.55
17DAP/reference	1.02336	0.764
27DAP/reference	1.04205	0.599
39DAP/reference	1.02144	0.557
41DAP/reference	1.12991	0.187
42DAP/reference	0.94806	0.196
43DAP/reference	1.00747	1
47DAP/reference	1.0816	0.84
52DAP/reference	0.89514	0.202
57DAP/reference	0.8114	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.16785	0.036
27DAP/17DAP	1.18376	0.403
39DAP/27DAP	0.92959	0.616
41DAP/39DAP	1.26908	1
42DAP/41DAP	1.24347	0.526
43DAP/42DAP	0.84162	0.256
47DAP/43DAP	1.0394	0.939
52DAP/47DAP	1.02896	0.975
57DAP/52DAP	1.24431	0.238
57DAP/7DAP	1.40374	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97082	0.402
17DAP/reference	1.04073	0.688
27DAP/reference	1.17831	0.088
39DAP/reference	1.1591	0.333
41DAP/reference	1.16314	0.147
42DAP/reference	1.10172	0.1
43DAP/reference	1.02411	1
47DAP/reference	0.94025	0.504
52DAP/reference	1.03776	0.781
57DAP/reference	0.92317	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16668	0.206
17DAP/reference	1.2815	0.053
27DAP/reference	1.10801	0.715
39DAP/reference	1.07981	0.824
41DAP/reference	1.02431	0.96
42DAP/reference	1.08371	0.777
43DAP/reference	1.46064	0.025
47DAP/reference	1.08398	0.749
52DAP/reference	1.03256	1
57DAP/reference	1.15049	0.094

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0123	1
17DAP/reference	1.01779	0.932
27DAP/reference	0.92979	0.184
39DAP/reference	1.01979	0.858
41DAP/reference	1.18048	0.047
42DAP/reference	0.97053	0.671
43DAP/reference	0.94728	0.281
47DAP/reference	0.93269	0.286
52DAP/reference	1.08042	0.813
57DAP/reference	1.04026	0.744

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8932	0.915
26DAP/20DAP	1.64218	0.177
34DAP/26DAP	1.06916	1
51DAP/34DAP	0.90981	0.449
52DAP/51DAP	0.66789	0.151
53DAP/52DAP	1.10444	0.643
55DAP/53DAP	0.78747	0.038
57DAP/55DAP	1.28805	0.256
62DAP/57DAP	0.91912	0.871
68DAP/62DAP	1.35372	0.053
68DAP/14DAP	1.10011	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.48577	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.36176	0.058
Immature Eggplant/Mature Eggplant	1.74982	0.205
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.24624

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.05921	1
12-2/M82	N/A	N/A
12-4/M82	0.95787
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	1.45099
4-1/M82	3.0576	0.512
4-3-2/M82	1.13216	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.41481
7-2/M82	N/A	N/A
9-3-2/M82	1.21355	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.56993	0.277
IL2-6/WTpooled	1.30051	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.29798	1
IL12-4/WTpooled	1.07972	0.646
IL1-4/WTpooled	1.05617	1
WT/WTpooled	0.86531	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	1.20898	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.66876	0.613
DC3000/delta hrp 12h	0.97399	1
DC3000/delta hrp 24h	0.90427	0.618

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20914
DC3000 delta B/DC3000 delta AB	1.12617	0.298

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12885	1
Exp 36h	1.08678	0.693
Exp 60h	0.92188	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01565	1
Var 0h	0.98939	1
Var 12h I row2-row1	0.97588	0.948
Var 12h NI row2-row1	0.96464	0.82
Var 36h I row2-row1	1.28374	0.489
Var 36h NI row2-row1	1.23961	0.482
Var 60h I row2-row1	0.78464	0.374
Var 60h NI row2-row1	0.94407	1
Time course 0hI-0hNI	1.05012	0.833
Time course 12hI-12hNI	0.98251	0.909
Time course 36hI-36hNI	1.06881	0.07
Time course 60hI-60hNI	1.27455	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)	1.06579	0.272
transgenic ySAMdc/azygous control (breaker)	1.06253	1
transgenic ySAMdc/azygous control (red)	1.04699	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9945	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01993	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97376	1
Manapal/WT (break)	1.19823	0.183
Manapal/WT (red)	0.90015	0.36