Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.4.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11077	0.615
27DAP/17DAP	1.04582	0.916
39DAP/27DAP	1.1101	0.745
41DAP/39DAP	1.00183	1
42DAP/41DAP	0.91314	1
43DAP/42DAP	1.01857	1
47DAP/43DAP	1.14529	0.733
52DAP/47DAP	1.07447	0.913
57DAP/52DAP	1.1327	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90521	0.074
17DAP/reference	0.94813	0.24
27DAP/reference	1.00634	0.904
39DAP/reference	0.8755	0.178
41DAP/reference	0.92639	0.341
42DAP/reference	0.88703	0.019
43DAP/reference	1.03023	0.942
47DAP/reference	0.89474	0.046
52DAP/reference	0.96767	0.461
57DAP/reference	1.03885	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09664	0.445
27DAP/17DAP	0.88391	0.418
39DAP/27DAP	1.08215	0.742
41DAP/39DAP	1.1517	0.801
42DAP/41DAP	1.02691	0.961
43DAP/42DAP	0.7638	0.111
47DAP/43DAP	0.97814	0.886
52DAP/47DAP	0.95769	0.839
57DAP/52DAP	1.26506	0.286
57DAP/7DAP	1.41368	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09133	0.576
17DAP/reference	1.30482	0.064
27DAP/reference	1.0854	0.16
39DAP/reference	1.29141	0.038
41DAP/reference	1.1071	0.524
42DAP/reference	1.26299	0.021
43DAP/reference	1.15327	0.099
47DAP/reference	1.1207	0.582
52DAP/reference	0.8498	0.163
57DAP/reference	1.00384	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00188	0.869
17DAP/reference	0.78769	0.021
27DAP/reference	0.98583	0.619
39DAP/reference	0.92612	0.314
41DAP/reference	0.91787	0.307
42DAP/reference	0.89608	0.028
43DAP/reference	0.8884	0.269
47DAP/reference	0.89137	0.077
52DAP/reference	1.02138	0.988
57DAP/reference	0.83952	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24541	0.076
17DAP/reference	0.92069	0.444
27DAP/reference	1.26428	0.057
39DAP/reference	1.07619	0.422
41DAP/reference	1.27577	0.265
42DAP/reference	0.96176	0.552
43DAP/reference	0.9379	0.432
47DAP/reference	0.90225	0.207
52DAP/reference	1.1075	0.592
57DAP/reference	0.99953	0.765

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03719	1
26DAP/20DAP	1.43317	0.24
34DAP/26DAP	0.83951	0.174
51DAP/34DAP	1.23141	0.326
52DAP/51DAP	0.88259	1
53DAP/52DAP	0.84208	0.133
55DAP/53DAP	0.8725	0.282
57DAP/55DAP	1.29213	0.178
62DAP/57DAP	0.98773	1
68DAP/62DAP	0.94598	0.769
68DAP/14DAP	1.31654	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12553	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73729	0.206
Mature Green Tomato/Ripe Tomato	1.46641	0.237
Immature Eggplant/Mature Eggplant	1.13937	0.3
Ripe Pepper/Ripe Tomato	1.49084	1
Mature Eggplant/Ripe Tomato	1.48574	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94309	0.944
1-1-2/M82	1.01475	1
12-2/M82	0.87989	0.496
12-4/M82	0.95609	1
1-3/M82	1.3851	0.277
2-1-1/M82	0.84328	0.465
2-1/M82	N/A	N/A
2-6/M82	0.70237	1
3-2/M82	1.15349	0.395
4-1-1/M82	0.94124	1
4-1/M82	1.18254	0.853
4-3-2/M82	0.7675
4-3/M82	1.17291	1
5-3/M82	1.15421	1
6-2/M82	0.93241	1
6-3/M82	1.09058	1
7-1/M82	1.09578	1
7-2/M82	0.97582	1
9-3-2/M82	0.98478	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73006
IL2-6/WTpooled	1.2423
IL7-5/WTpooled	0.86907
IL7-3/WTpooled	0.83301	0.418
IL12-4/WTpooled	0.7301	0.71
IL1-4/WTpooled	0.9069	0.699
WT/WTpooled	1.04539	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	1.15685	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12955	0.671
DC3000/delta hrp 6h	0.92108	0.95
DC3000/delta hrp 12h	0.88823	1
DC3000/delta hrp 24h	1.56053	0.025

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22074	0.11
DC3000 delta B/DC3000 delta AB	1.20968	0.429

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.7622	1
Exp 36h	1.15374	1
Exp 60h	1.18933	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.98331	0.332
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.04779	0.482
transgenic ySAMdc/azygous control (breaker)	1.4929	0.166
transgenic ySAMdc/azygous control (red)	1.08218	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94979	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08067	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7913	0.172
Manapal/WT (break)	0.92615	1
Manapal/WT (red)	0.98725	0.607