Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07294	1
27DAP/17DAP	0.86619	0.631
39DAP/27DAP	1.52847	0.249
41DAP/39DAP	0.6847	0.075
42DAP/41DAP	0.74093	0.774
43DAP/42DAP	0.9429	0.883
47DAP/43DAP	0.81293	0.439
52DAP/47DAP	0.93935	0.771
57DAP/52DAP	1.23392	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.56355	0.012
17DAP/reference	1.58417	0.166
27DAP/reference	1.54449	0.008
39DAP/reference	1.69957	0.024
41DAP/reference	2.06181	0.058
42DAP/reference	1.31736	0.001
43DAP/reference	0.65585	0.118
47DAP/reference	1.03688	0.636
52DAP/reference	1.38326	0.007
57DAP/reference	0.87749	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04443	0.697
27DAP/17DAP	0.8478	0.58
39DAP/27DAP	0.75209	0.181
41DAP/39DAP	1.24414	0.719
42DAP/41DAP	0.93318	0.545
43DAP/42DAP	0.80652	0.03
47DAP/43DAP	0.96182	0.855
52DAP/47DAP	0.82307	0.321
57DAP/52DAP	0.99998	0.756
57DAP/7DAP	0.44966	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87226	0.1
17DAP/reference	0.84858	0.011
27DAP/reference	0.87189	0.01
39DAP/reference	0.95784	0.198
41DAP/reference	0.97298	0.431
42DAP/reference	0.86433	0.02
43DAP/reference	0.87456	0.032
47DAP/reference	1.25584	0.139
52DAP/reference	0.96216	0.213
57DAP/reference	0.9624	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33769	0.104
17DAP/reference	1.56032	0.285
27DAP/reference	1.36242	0.017
39DAP/reference	1.36497	0.011
41DAP/reference	1.39747	0.009
42DAP/reference	1.24363	0.148
43DAP/reference	1.78676	0.065
47DAP/reference	1.36215	0.01
52DAP/reference	1.4725	0.017
57DAP/reference	1.56096	0.062

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93205	0.422
17DAP/reference	1.14882	0.551
27DAP/reference	0.87306	0.081
39DAP/reference	0.97235	0.504
41DAP/reference	1.25734	0.692
42DAP/reference	0.98757	0.816
43DAP/reference	1.07583	0.803
47DAP/reference	1.36644	0.06
52DAP/reference	0.92344	0.464
57DAP/reference	1.6814	0.625

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91262	1
26DAP/20DAP	1.523	0.102
34DAP/26DAP	0.96117	0.92
51DAP/34DAP	0.81861	0.376
52DAP/51DAP	0.84921	1
53DAP/52DAP	0.81063	0.445
55DAP/53DAP	0.66938	0.303
57DAP/55DAP	1.08956	0.93
62DAP/57DAP	0.86519	0.681
68DAP/62DAP	0.99606	0.787
68DAP/14DAP	1.01023	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.86316	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.21155	0.399
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-1/M82	2.56775
4-3-2/M82	0.98294
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	0.9927
7-2/M82	N/A	N/A
9-3-2/M82	1.86386

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.45355
IL2-6/WTpooled	1.11438	0.788
IL7-5/WTpooled	1.13974
IL7-3/WTpooled	1.2949	1
IL12-4/WTpooled	1.16545	0.737
IL1-4/WTpooled	0.90621	0.699
WT/WTpooled	1.03944	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	1.41557	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	2.1804	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03879	1
DC3000/delta hrp 24h	0.70187	0.163

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.67368	0.025
DC3000 delta B/DC3000 delta AB	0.54143	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03658	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98213	1
Var 0h	0.86687	1
Var 12h I row2-row1	0.82032	0.338
Var 12h NI row2-row1	0.98759	1
Var 36h I row2-row1	0.78254	0.805
Var 36h NI row2-row1	1.042	1
Var 60h I row2-row1	1.03081	1
Var 60h NI row2-row1	0.98669	1
Time course 0hI-0hNI	0.90222	0.3
Time course 12hI-12hNI	1.05637	0.65
Time course 36hI-36hNI	1.02084	0.975
Time course 60hI-60hNI	0.2945	0.006

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)	0.90747	0.662
transgenic ySAMdc/azygous control (breaker)	1.11256	1
transgenic ySAMdc/azygous control (red)	0.79614	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90297	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10943	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	2.07097	1