Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.19.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6463	0.064
27DAP/17DAP	0.95473	0.892
39DAP/27DAP	1.01855	0.82
41DAP/39DAP	1.17077	0.268
42DAP/41DAP	0.95861	1
43DAP/42DAP	1.04073	1
47DAP/43DAP	1.14891	0.633
52DAP/47DAP	0.92168	0.74
57DAP/52DAP	1.0971	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14632	0.403
17DAP/reference	1.10238	0.492
27DAP/reference	1.1107	0.587
39DAP/reference	1.08761	0.256
41DAP/reference	1.03597	0.91
42DAP/reference	1.07054	0.523
43DAP/reference	0.91444	0.273
47DAP/reference	1.0732	0.448
52DAP/reference	1.13472	0.302
57DAP/reference	0.96452	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81299	0.245
27DAP/17DAP	1.3271	0.055
39DAP/27DAP	0.74257	0.037
41DAP/39DAP	0.7791	0.08
42DAP/41DAP	0.94564	0.666
43DAP/42DAP	1.18824	0.056
47DAP/43DAP	0.84512	0.243
52DAP/47DAP	0.99398	0.962
57DAP/52DAP	1.03253	0.911
57DAP/7DAP	0.71779	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97524	0.55
17DAP/reference	0.89503	0.124
27DAP/reference	0.83204	0.035
39DAP/reference	1.1954	0.436
41DAP/reference	1.107	0.539
42DAP/reference	1.2797	0.03
43DAP/reference	1.07488	0.637
47DAP/reference	1.11972	0.2
52DAP/reference	1.21605	0.352
57DAP/reference	1.15669	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02981	0.951
17DAP/reference	0.9294	0.41
27DAP/reference	1.13537	0.888
39DAP/reference	0.97925	0.569
41DAP/reference	0.84149	0.16
42DAP/reference	1.22133	0.195
43DAP/reference	0.8646	0.206
47DAP/reference	0.9331	0.284
52DAP/reference	1.09512	0.988
57DAP/reference	1.02102	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10297	0.481
17DAP/reference	1.08849	0.932
27DAP/reference	1.0271	0.749
39DAP/reference	0.99712	0.819
41DAP/reference	1.02802	0.961
42DAP/reference	0.85348	0.134
43DAP/reference	0.75708	0.03
47DAP/reference	0.64304	0.06
52DAP/reference	0.83487	0.342
57DAP/reference	0.99513	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15557
26DAP/20DAP	0.88086	0.244
34DAP/26DAP	1.09327	1
51DAP/34DAP	0.75745	0.073
52DAP/51DAP	1.0942	0.467
53DAP/52DAP	1.06348	0.806
55DAP/53DAP	1.1229	0.703
57DAP/55DAP	0.97519	0.799
62DAP/57DAP	1.0583	0.994
68DAP/62DAP	0.75118	0.464
68DAP/14DAP	0.64958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.53064	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.76662
Mature Green Tomato/Ripe Tomato	1.47687	0.209
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.00442
Mature Eggplant/Ripe Tomato	0.07327	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.95241	1
12-2/M82	0.61916
12-4/M82	1.04623	1
1-3/M82	1.92625
2-1-1/M82	0.90488
2-1/M82	N/A	N/A
2-6/M82	1.04992
3-2/M82	N/A	N/A
4-1-1/M82	1.56283	0.874
4-1/M82	N/A	N/A
4-3-2/M82	0.8912
4-3/M82	1.37998	1
5-3/M82	0.9284	1
6-2/M82	0.57134	0.481
6-3/M82	0.93749	1
7-1/M82	0.89532
7-2/M82	0.46725	1
9-3-2/M82	1.42171

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.93723	1
IL7-5/WTpooled	0.71136
IL7-3/WTpooled	0.87376	1
IL12-4/WTpooled	1.08465	1
IL1-4/WTpooled	1.09451	0.426
WT/WTpooled	1.05977	0.999

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	1.07791	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83495	0.697
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.08486	1
DC3000/delta hrp 24h	1.38138	0.202

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.82206	0.032
DC3000 delta B/DC3000 delta AB	0.74072	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	0.96605	1
Var 0h	0.88982	0.933
Var 12h I row2-row1	1.15216	0.692
Var 12h NI row2-row1	0.9561	0.906
Var 36h I row2-row1	1.25587	0.742
Var 36h NI row2-row1	1.12743	0.482
Var 60h I row2-row1	1.06216	1
Var 60h NI row2-row1	0.90077	0.866
Time course 0hI-0hNI	0.97552	0.906
Time course 12hI-12hNI	0.94195	0.551
Time course 36hI-36hNI	0.98299	0.611
Time course 60hI-60hNI	0.47194	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.87529	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.15525	0.047

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.69734	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)	1.36009	0.222