Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.18.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99177	0.867
27DAP/17DAP	1.15197	0.845
39DAP/27DAP	0.72891	0.421
41DAP/39DAP	1.62266	0.468
42DAP/41DAP	1.08573	1
43DAP/42DAP	0.98271	0.925
47DAP/43DAP	1.11365	0.68
52DAP/47DAP	1.09441	0.745
57DAP/52DAP	0.95959	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93566	0.246
17DAP/reference	1.04194	0.108
27DAP/reference	1.03473	0.709
39DAP/reference	1.03284	0.465
41DAP/reference	1.04418	0.552
42DAP/reference	0.99932	0.645
43DAP/reference	0.94837	0.377
47DAP/reference	0.94278	0.137
52DAP/reference	0.86766	0.071
57DAP/reference	0.8738	0.035

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.40631	0.144
27DAP/17DAP	0.96005	0.748
39DAP/27DAP	1.11028	0.383
41DAP/39DAP	1.25383	0.258
42DAP/41DAP	0.7471	0.033
43DAP/42DAP	0.85571	0.039
47DAP/43DAP	0.98517	0.93
52DAP/47DAP	1.08877	0.766
57DAP/52DAP	1.11671	0.563
57DAP/7DAP	1.49074	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97823	0.55
17DAP/reference	1.12548	0.244
27DAP/reference	1.05725	0.453
39DAP/reference	1.12488	0.237
41DAP/reference	1.03452	0.614
42DAP/reference	1.10547	0.132
43DAP/reference	1.20084	0.099
47DAP/reference	0.97448	0.671
52DAP/reference	0.95801	0.304
57DAP/reference	1.02015	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01301	0.874
17DAP/reference	0.98194	0.594
27DAP/reference	0.86583	0.15
39DAP/reference	0.86701	0.105
41DAP/reference	0.81864	0.058
42DAP/reference	0.86814	0.042
43DAP/reference	1.08059	0.835
47DAP/reference	0.9862	0.559
52DAP/reference	1.06385	0.3
57DAP/reference	0.92341	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89925	0.249
17DAP/reference	1.01273	1
27DAP/reference	1.27218	0.025
39DAP/reference	1.13717	0.026
41DAP/reference	1.06954	0.714
42DAP/reference	0.91424	0.361
43DAP/reference	0.90493	0.267
47DAP/reference	0.99936	0.667
52DAP/reference	1.20712	0.194
57DAP/reference	0.72459	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00709	1
26DAP/20DAP	1.07481	0.988
34DAP/26DAP	1.16879	1
51DAP/34DAP	0.76035	0.197
52DAP/51DAP	1.48223	0.288
53DAP/52DAP	1.23423	0.608
55DAP/53DAP	1.06599	0.855
57DAP/55DAP	1.06801	0.969
62DAP/57DAP	1.13274	0.8
68DAP/62DAP	1.32692	0.405
68DAP/14DAP	0.82988	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19105	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85082
Mature Green Tomato/Ripe Tomato	0.82632	0.051
Immature Eggplant/Mature Eggplant	1.15343	0.417
Ripe Pepper/Ripe Tomato	0.41911	0.224
Mature Eggplant/Ripe Tomato	0.40924	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06421	1
1-1-2/M82	1.02263	1
12-2/M82	1.19455	1
12-4/M82	1.03595	1
1-3/M82	0.91722	0.501
2-1-1/M82	0.89392
2-1/M82	0.93107
2-6/M82	0.85377
3-2/M82	0.92151	0.455
4-1-1/M82	1.03445	1
4-1/M82	1.34805	0.853
4-3-2/M82	0.73205	0.487
4-3/M82	0.90426	0.611
5-3/M82	0.9744	1
6-2/M82	0.83066	0.497
6-3/M82	1.02781	1
7-1/M82	1.00424
7-2/M82	1.05218	1
9-3-2/M82	0.81934

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09542
IL2-6/WTpooled	0.57848
IL7-5/WTpooled	0.37242
IL7-3/WTpooled	1.45595	0.362
IL12-4/WTpooled	1.31051	0.525
IL1-4/WTpooled	1.12656	1
WT/WTpooled	1.17176	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	0.91704	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97323	1
DC3000/delta hrp 6h	0.7856	0.95
DC3000/delta hrp 12h	1.25878	1
DC3000/delta hrp 24h	1.03966	0.69

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01794	1
Exp 36h	1.24587	0.489
Exp 60h	1.05861	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.11172	0.25
Var 0h	1.16203	0.374
Var 12h I row2-row1	1.1184	0.473
Var 12h NI row2-row1	0.70404	0.713
Var 36h I row2-row1	0.99714	1
Var 36h NI row2-row1	0.98097	0.852
Var 60h I row2-row1	1.07321	0.562
Var 60h NI row2-row1	0.79263	0.977
Time course 0hI-0hNI	1.04685	0.852
Time course 12hI-12hNI	0.98286	0.909
Time course 36hI-36hNI	0.94056	0.241
Time course 60hI-60hNI	1.50135	0.025

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)	1.02817	0.482
transgenic ySAMdc/azygous control (breaker)	1.28448	0.172
transgenic ySAMdc/azygous control (red)	0.97939	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9663	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93216	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92017	1
Manapal/WT (break)	0.89401	1
Manapal/WT (red)	0.85911	0.229