Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.17.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22233	0.523
27DAP/17DAP	0.99014	1
39DAP/27DAP	2.33655	0.063
41DAP/39DAP	0.93046	0.802
42DAP/41DAP	2.46681	0.719
43DAP/42DAP	1.2641	0.867
47DAP/43DAP	1.03508	0.972
52DAP/47DAP	1.82301	0.168
57DAP/52DAP	0.70783	0.656

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91033	0.128
17DAP/reference	0.95884	0.474
27DAP/reference	0.90531	0.257
39DAP/reference	0.91386	0.261
41DAP/reference	0.89594	0.114
42DAP/reference	0.89587	0.019
43DAP/reference	0.96078	0.394
47DAP/reference	0.95303	0.3
52DAP/reference	1.0111	1
57DAP/reference	0.94382	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80789	0.35
27DAP/17DAP	1.19562	0.822
39DAP/27DAP	1.15484	0.691
41DAP/39DAP	0.99958	1
42DAP/41DAP	1.11865	0.763
43DAP/42DAP	1.04441	0.83
47DAP/43DAP	1.38423	0.024
52DAP/47DAP	1.78656	0.104
57DAP/52DAP	2.61017	0.039
57DAP/7DAP	2.45706	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15368	0.263
17DAP/reference	0.97857	0.599
27DAP/reference	0.89206	0.2
39DAP/reference	1.19877	0.333
41DAP/reference	1.04113	0.745
42DAP/reference	1.37525	0.012
43DAP/reference	1.03754	0.83
47DAP/reference	0.90369	0.168
52DAP/reference	1.17264	0.071
57DAP/reference	1.13976	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80277	0.06
17DAP/reference	0.69832	0.009
27DAP/reference	0.87887	0.1
39DAP/reference	0.88352	0.173
41DAP/reference	0.96052	0.384
42DAP/reference	0.85784	0.025
43DAP/reference	0.72423	0.022
47DAP/reference	0.79802	0.011
52DAP/reference	0.79595	0.004
57DAP/reference	0.60335	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87932	0.214
17DAP/reference	1.03391	1
27DAP/reference	1.02047	0.967
39DAP/reference	0.9769	0.591
41DAP/reference	1.03341	1
42DAP/reference	1.24021	0.209
43DAP/reference	1.23157	0.233
47DAP/reference	0.89681	0.132
52DAP/reference	0.98949	0.704
57DAP/reference	1.0657	0.694

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04786	0.966
26DAP/20DAP	1.03901	1
34DAP/26DAP	0.99604	1
51DAP/34DAP	1.06929	0.936
52DAP/51DAP	1.19727	0.481
53DAP/52DAP	1.25574	0.384
55DAP/53DAP	1.06491	0.938
57DAP/55DAP	0.87784	0.496
62DAP/57DAP	1.31969	0.445
68DAP/62DAP	2.11355	0.353
68DAP/14DAP	3.33399	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.36764	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13394
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.09857
Ripe Pepper/Ripe Tomato	0.57106	1
Mature Eggplant/Ripe Tomato	0.08495	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.6575	0.56
1-1-2/M82	1.02005	1
12-2/M82	1.69446	0.61
12-4/M82	0.65027	0.282
1-3/M82	0.61137
2-1-1/M82	0.83354	0.92
2-1/M82	N/A	N/A
2-6/M82	0.72798	1
3-2/M82	0.57128
4-1-1/M82	0.79749	1
4-1/M82	1.00897
4-3-2/M82	0.49448
4-3/M82	0.50204	0.397
5-3/M82	0.70602	0.364
6-2/M82	0.64422	0.497
6-3/M82	1.61111	1
7-1/M82	0.71739	0.803
7-2/M82	0.6986	0.57
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.48147
IL2-6/WTpooled	1.94518	0.409
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08333	1
IL12-4/WTpooled	1.05363	0.839
IL1-4/WTpooled	1.51924	0.426
WT/WTpooled	1.05432	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	1.03552

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97525	1
DC3000/delta hrp 6h	1.07582	1
DC3000/delta hrp 12h	1.05124	1
DC3000/delta hrp 24h	1.01993	0.779

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	1.0603	0.586

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89033	0.265
Exp 36h	0.62131	0.661
Exp 60h	1.03487	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06768	1
Var 0h	0.92948	1
Var 12h I row2-row1	1.09189	0.473
Var 12h NI row2-row1	0.79594	0.713
Var 36h I row2-row1	3.85908	0.908
Var 36h NI row2-row1	1.1919	1
Var 60h I row2-row1	1.00237	1
Var 60h NI row2-row1	1.0875	1
Time course 0hI-0hNI	0.7903	0.472
Time course 12hI-12hNI	1.08471	0.58
Time course 36hI-36hNI	1.01502	1
Time course 60hI-60hNI	1.27261	0.254

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)	0.95268	0.567
transgenic ySAMdc/azygous control (breaker)	1.08784	1
transgenic ySAMdc/azygous control (red)	0.91163	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9496	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99392	1
Manapal/WT (break)	1.18401	0.381
Manapal/WT (red)	0.96124	0.728