Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8572	0.381
27DAP/17DAP	1.11102	0.859
39DAP/27DAP	0.97708	0.7
41DAP/39DAP	1.49765	0.23
42DAP/41DAP	1.04738	1
43DAP/42DAP	1.11719	1
47DAP/43DAP	0.92315	0.66
52DAP/47DAP	1.44885	0.572
57DAP/52DAP	0.93437	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02556	0.685
17DAP/reference	1.17264	0.014
27DAP/reference	1.03687	0.612
39DAP/reference	1.04209	0.557
41DAP/reference	1.0247	0.855
42DAP/reference	0.84918	0.003
43DAP/reference	1.01563	0.73
47DAP/reference	0.81845	0.021
52DAP/reference	0.7697	0.043
57DAP/reference	0.85348	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00461	1
27DAP/17DAP	1.16117	0.604
39DAP/27DAP	1.07994	0.626
41DAP/39DAP	1.07285	1
42DAP/41DAP	1.14761	0.694
43DAP/42DAP	1.02647	0.746
47DAP/43DAP	1.01085	1
52DAP/47DAP	1.13919	0.703
57DAP/52DAP	0.87091	0.27
57DAP/7DAP	1.33926	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10692	0.409
17DAP/reference	0.97849	0.447
27DAP/reference	1.0736	0.664
39DAP/reference	1.06059	0.252
41DAP/reference	0.96521	0.431
42DAP/reference	1.01517	0.791
43DAP/reference	0.89977	0.279
47DAP/reference	0.90489	0.293
52DAP/reference	0.9165	0.115
57DAP/reference	0.90472	0.215

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17232	0.269
17DAP/reference	1.04043	0.557
27DAP/reference	0.88654	0.033
39DAP/reference	0.96324	0.404
41DAP/reference	0.87878	0.145
42DAP/reference	0.80531	0.013
43DAP/reference	1.06422	0.735
47DAP/reference	0.88603	0.021
52DAP/reference	1.02829	0.528
57DAP/reference	1.33216	0.2

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14034	0.13
17DAP/reference	0.95858	0.579
27DAP/reference	1.05237	0.237
39DAP/reference	0.9616	0.393
41DAP/reference	0.9764	0.618
42DAP/reference	0.87313	0.287
43DAP/reference	0.81406	0.076
47DAP/reference	0.84682	0.132
52DAP/reference	0.88029	0.189
57DAP/reference	0.54427	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07394	0.752
26DAP/20DAP	0.86731	0.512
34DAP/26DAP	1.03528	1
51DAP/34DAP	0.88346	0.419
52DAP/51DAP	0.99352	1
53DAP/52DAP	1.08746	0.723
55DAP/53DAP	1.06241	0.855
57DAP/55DAP	0.93368	0.664
62DAP/57DAP	1.27498	0.303
68DAP/62DAP	0.78325	0.378
68DAP/14DAP	1.03896	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6204	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.7117	0.203
Mature Green Tomato/Ripe Tomato	0.75795	0.2
Immature Eggplant/Mature Eggplant	1.25721	0.165
Ripe Pepper/Ripe Tomato	4.22139	0.258
Mature Eggplant/Ripe Tomato	2.07332	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92896	0.944
1-1-2/M82	1.02081
12-2/M82	0.84841
12-4/M82	0.9355	1
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	0.94733
4-1-1/M82	N/A	N/A
4-1/M82	0.97023	1
4-3-2/M82	0.63889
4-3/M82	0.80326
5-3/M82	1.19714	1
6-2/M82	N/A	N/A
6-3/M82	1.09988
7-1/M82	1.02921
7-2/M82	0.65436
9-3-2/M82	0.86228	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.58586	0.243
IL2-6/WTpooled	1.08562	0.46
IL7-5/WTpooled	1.27222
IL7-3/WTpooled	1.11698	0.362
IL12-4/WTpooled	0.80059	0.539
IL1-4/WTpooled	1.05835	1
WT/WTpooled	0.94749	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	1.01003	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02095	1
DC3000/delta hrp 6h	1.17189	1
DC3000/delta hrp 12h	1.11138	1
DC3000/delta hrp 24h	0.98689	0.966

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.73835	0.059
DC3000 delta B/DC3000 delta AB	0.83638	0.093

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.58979	1
Exp 36h	1.54921	0.489
Exp 60h	1.15688	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98587	1
Var 0h	1.31568	0.936
Var 12h I row2-row1	1.00952	1
Var 12h NI row2-row1	0.89119	0.443
Var 36h I row2-row1	0.83891	0.374
Var 36h NI row2-row1	1.20767	1
Var 60h I row2-row1	1.20399	0.562
Var 60h NI row2-row1	1.0857	0.904
Time course 0hI-0hNI	1.12163	0.413
Time course 12hI-12hNI	0.99977	1
Time course 36hI-36hNI	0.9189	0.302
Time course 60hI-60hNI	0.67855	0.007

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)	0.97289	0.529
transgenic ySAMdc/azygous control (breaker)	0.94019	0.251
transgenic ySAMdc/azygous control (red)	0.77549	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98856	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84792	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99923	1
Manapal/WT (break)	1.02569	1
Manapal/WT (red)	1.02305	1