Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.11.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9566	0.713
27DAP/17DAP	1.15263	0.847
39DAP/27DAP	1.11719	0.804
41DAP/39DAP	0.90453	0.558
42DAP/41DAP	1.01117	1
43DAP/42DAP	0.97334	0.91
47DAP/43DAP	0.92739	0.736
52DAP/47DAP	1.0013	0.991
57DAP/52DAP	1.02813	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98436	0.562
17DAP/reference	1.05382	0.258
27DAP/reference	1.03057	0.672
39DAP/reference	1.0724	0.017
41DAP/reference	0.91502	0.267
42DAP/reference	1.03148	0.191
43DAP/reference	1.00891	0.928
47DAP/reference	0.99743	0.72
52DAP/reference	0.94369	0.283
57DAP/reference	1.11478	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01357	0.881
27DAP/17DAP	0.98612	0.887
39DAP/27DAP	0.97749	0.712
41DAP/39DAP	1.05014	0.484
42DAP/41DAP	1.04341	0.836
43DAP/42DAP	0.98089	0.684
47DAP/43DAP	0.98473	0.909
52DAP/47DAP	0.98021	0.901
57DAP/52DAP	0.99806	0.897
57DAP/7DAP	0.93818	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9364	0.078
17DAP/reference	0.92871	0.015
27DAP/reference	0.90003	0.01
39DAP/reference	0.98819	0.552
41DAP/reference	1.04956	0.46
42DAP/reference	0.98632	0.641
43DAP/reference	0.99682	0.694
47DAP/reference	0.97651	0.383
52DAP/reference	0.96649	0.213
57DAP/reference	0.95086	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00611	0.943
17DAP/reference	0.99492	0.766
27DAP/reference	0.97662	0.467
39DAP/reference	0.98706	0.539
41DAP/reference	1.02241	1
42DAP/reference	1.07594	0.445
43DAP/reference	0.99938	0.846
47DAP/reference	1.07539	0.095
52DAP/reference	0.9893	0.5
57DAP/reference	0.99207	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92275	0.092
17DAP/reference	1.00767	1
27DAP/reference	0.93972	0.133
39DAP/reference	0.91907	0.031
41DAP/reference	0.94465	0.055
42DAP/reference	0.8956	0.041
43DAP/reference	0.9527	0.197
47DAP/reference	1.00735	1
52DAP/reference	0.9244	0.36
57DAP/reference	0.99344	0.742

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00757	0.966
26DAP/20DAP	1.01875	1
34DAP/26DAP	0.98436	0.945
51DAP/34DAP	1.00361	1
52DAP/51DAP	1.00974	0.904
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.13318
57DAP/55DAP	0.99705	0.944
62DAP/57DAP	0.89488	0.28
68DAP/62DAP	1.59323	0.021
68DAP/14DAP	1.29242	0.249

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02005	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93899	0.563
Mature Green Tomato/Ripe Tomato	0.80567	0.446
Immature Eggplant/Mature Eggplant	1.30059	0.19
Ripe Pepper/Ripe Tomato	2.66284
Mature Eggplant/Ripe Tomato	2.54527	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94543	0.944
1-1-2/M82	0.96698	1
12-2/M82	0.9231	0.955
12-4/M82	0.98518	1
1-3/M82	0.99078
2-1-1/M82	0.84949	0.465
2-1/M82	1.13634	1
2-6/M82	0.96095	0.501
3-2/M82	1.00905	0.967
4-1-1/M82	1.0586	1
4-1/M82	0.85492	0.998
4-3-2/M82	0.88531	1
4-3/M82	0.92068	0.72
5-3/M82	0.96574	1
6-2/M82	1.0051	1
6-3/M82	1.00617	1
7-1/M82	1.03421	0.598
7-2/M82	0.94061	0.881
9-3-2/M82	0.89605	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31741	0.277
IL2-6/WTpooled	1.20277	0.456
IL7-5/WTpooled	1.10248	1
IL7-3/WTpooled	1.00628	1
IL12-4/WTpooled	1.11683	0.595
IL1-4/WTpooled	1.00653	1
WT/WTpooled	1.09865	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	1.00813	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99887	1
DC3000/delta hrp 6h	1.41296	1
DC3000/delta hrp 12h	1.02944	1
DC3000/delta hrp 24h	1.06026	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02494	0.476
DC3000 delta B/DC3000 delta AB	0.96601	0.529

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12566	1
Exp 36h	1.40358	1
Exp 60h	1.04645	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00647	1
Var 0h	1.03287	1
Var 12h I row2-row1	1.12513	0.202
Var 12h NI row2-row1	0.98264	0.906
Var 36h I row2-row1	0.95891	1
Var 36h NI row2-row1	0.92291	0.522
Var 60h I row2-row1	1.06945	1
Var 60h NI row2-row1	1.07296	1
Time course 0hI-0hNI	1.02617	1
Time course 12hI-12hNI	1.05324	0.698
Time course 36hI-36hNI	0.96851	0.403
Time course 60hI-60hNI	0.98258	0.646

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)	0.95448	0.614
transgenic ySAMdc/azygous control (breaker)	1.1701	1
transgenic ySAMdc/azygous control (red)	1.32118	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99575	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.32873	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05898	1
Manapal/WT (break)	1.45148	0.381
Manapal/WT (red)	0.90555	0.424