Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.9.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83711	0.405
27DAP/17DAP	1.28672	0.784
39DAP/27DAP	1.14156	0.902
41DAP/39DAP	1.23379	0.964
42DAP/41DAP	0.86178	0.774
43DAP/42DAP	0.99578	0.937
47DAP/43DAP	1.09055	0.733
52DAP/47DAP	1.78849	0.164
57DAP/52DAP	0.95505	0.949

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03262	0.29
17DAP/reference	0.98901	0.777
27DAP/reference	1.01585	0.996
39DAP/reference	0.90794	0.194
41DAP/reference	1.00599	1
42DAP/reference	1.25543	0.001
43DAP/reference	1.03384	0.678
47DAP/reference	1.05164	0.34
52DAP/reference	0.96835	0.475
57DAP/reference	1.05194	0.621

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03189	0.728
27DAP/17DAP	1.01036	1
39DAP/27DAP	1.19229	0.471
41DAP/39DAP	0.96402	0.923
42DAP/41DAP	1.17835	0.106
43DAP/42DAP	1.04418	0.83
47DAP/43DAP	1.01183	0.997
52DAP/47DAP	1.35899	0.563
57DAP/52DAP	1.23005	0.378
57DAP/7DAP	1.21449	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06434	0.927
17DAP/reference	1.37614	0.007
27DAP/reference	0.98446	0.53
39DAP/reference	1.17317	0.042
41DAP/reference	1.16868	0.314
42DAP/reference	1.17054	0.308
43DAP/reference	1.96929	0.006
47DAP/reference	1.05186	0.732
52DAP/reference	1.25529	0.247
57DAP/reference	2.49118	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01594	0.903
17DAP/reference	1.09044	0.042
27DAP/reference	0.8614	0.084
39DAP/reference	0.95432	0.274
41DAP/reference	0.89426	0.152
42DAP/reference	0.9401	0.189
43DAP/reference	1.01235	0.801
47DAP/reference	0.98674	0.559
52DAP/reference	0.8976	0.009
57DAP/reference	1.04627	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00226	0.75
17DAP/reference	0.96062	0.55
27DAP/reference	1.30022	0.078
39DAP/reference	1.29631	0.02
41DAP/reference	0.9949	0.754
42DAP/reference	1.09108	0.391
43DAP/reference	1.40583	0.038
47DAP/reference	1.37167	0.028
52DAP/reference	1.82672	0.03
57DAP/reference	1.23812	0.311

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0529	1
26DAP/20DAP	1.26593	0.293
34DAP/26DAP	1.10725	1
51DAP/34DAP	1.60122	0.121
52DAP/51DAP	1.13886	0.842
53DAP/52DAP	1.47071	0.032
55DAP/53DAP	0.92458	0.663
57DAP/55DAP	0.70855	0.045
62DAP/57DAP	1.57531	1
68DAP/62DAP	1.04567	0.914
68DAP/14DAP	0.91747	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90608	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.38867	0.058
Mature Green Tomato/Ripe Tomato	0.43217	0.023
Immature Eggplant/Mature Eggplant	1.48691	0.051
Ripe Pepper/Ripe Tomato	0.76234	1
Mature Eggplant/Ripe Tomato	10.6781	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.9018	1
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	N/A	N/A
4-3-2/M82	1.13746
4-3/M82	N/A	N/A
5-3/M82	0.8855	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.92824
7-2/M82	0.9441
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.09803	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02296	1
IL12-4/WTpooled	1.329	0.546
IL1-4/WTpooled	0.98874	1
WT/WTpooled	0.91158	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	0.99035	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.929	1
DC3000/delta hrp 6h	1.07845	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.68274	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20648	0.102
DC3000 delta B/DC3000 delta AB	1.14603	0.341

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96311	1
Exp 36h	1.33424	0.693
Exp 60h	1.41075	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01932	1
Var 0h	1.25133	0.274
Var 12h I row2-row1	0.83729	0.338
Var 12h NI row2-row1	1.23848	1
Var 36h I row2-row1	0.76163	1
Var 36h NI row2-row1	0.99504	0.852
Var 60h I row2-row1	0.70935	0.374
Var 60h NI row2-row1	1.02598	1
Time course 0hI-0hNI	0.91613	0.513
Time course 12hI-12hNI	0.90275	0.225
Time course 36hI-36hNI	0.87471	0.136
Time course 60hI-60hNI	1.51937	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)	1.27954	0.612
transgenic ySAMdc/azygous control (breaker)	0.84345	0.49
transgenic ySAMdc/azygous control (red)	1.14897	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01155	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.34069	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13849	0.307
Manapal/WT (break)	0.67972	0.333
Manapal/WT (red)	1.05251	1