Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30019	0.348
27DAP/17DAP	1.12891	1
39DAP/27DAP	1.26326	0.53
41DAP/39DAP	1.40533	0.363
42DAP/41DAP	2.1358	0.029
43DAP/42DAP	0.83522	0.77
47DAP/43DAP	0.87189	0.526
52DAP/47DAP	1.15086	0.989
57DAP/52DAP	0.93334	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95181	0.503
17DAP/reference	1.14964	0.04
27DAP/reference	1.0948	0.239
39DAP/reference	1.13849	0.059
41DAP/reference	1.17011	0.026
42DAP/reference	1.11547	0.055
43DAP/reference	0.99916	0.924
47DAP/reference	0.91685	0.018
52DAP/reference	1.02946	0.912
57DAP/reference	0.87266	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88477
27DAP/17DAP	N/A	N/A
39DAP/27DAP	0.8459
41DAP/39DAP	1.60866
42DAP/41DAP	1.15228	0.622
43DAP/42DAP	N/A	N/A
47DAP/43DAP	0.82394	0.846
52DAP/47DAP	0.8139	0.694
57DAP/52DAP	0.81374	0.047
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89821	0.1
17DAP/reference	0.97166	0.338
27DAP/reference	0.88461	0.035
39DAP/reference	1.23124	0.044
41DAP/reference	0.8361	0.04
42DAP/reference	0.93929	0.222
43DAP/reference	0.957	0.403
47DAP/reference	0.97248	0.671
52DAP/reference	0.81468	0.017
57DAP/reference	1.00352	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01778	0.852
17DAP/reference	1.02057	0.83
27DAP/reference	1.00521	1
39DAP/reference	1.26203	0.543
41DAP/reference	1.05732	0.688
42DAP/reference	0.96293	0.433
43DAP/reference	1.06728	0.497
47DAP/reference	0.9403	0.221
52DAP/reference	1.12876	0.667
57DAP/reference	1.14463	0.07

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85928	0.104
17DAP/reference	0.9423	0.452
27DAP/reference	0.87033	0.119
39DAP/reference	0.93072	0.054
41DAP/reference	0.90847	0.209
42DAP/reference	0.98945	0.816
43DAP/reference	0.89924	0.158
47DAP/reference	0.95441	0.348
52DAP/reference	0.90185	0.342
57DAP/reference	1.04804	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10481	0.966
26DAP/20DAP	2.24713
34DAP/26DAP	N/A	N/A
51DAP/34DAP	6.56411
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.96383	0.924
55DAP/53DAP	2.34636
57DAP/55DAP	0.86778	0.59
62DAP/57DAP	1.10981	0.767
68DAP/62DAP	1.3317	0.464
68DAP/14DAP	1.00957	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	6.28939	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.91412	0.03
Immature Eggplant/Mature Eggplant	0.80855	0.254
Ripe Pepper/Ripe Tomato	0.51538
Mature Eggplant/Ripe Tomato	3.7159	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15829
1-1-2/M82	1.33974
12-2/M82	N/A	N/A
12-4/M82	0.83913
1-3/M82	N/A	N/A
2-1-1/M82	0.21048
2-1/M82	N/A	N/A
2-6/M82	0.88254
3-2/M82	0.54335
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91495	1
6-2/M82	N/A	N/A
6-3/M82	1.40133
7-1/M82	0.92909
7-2/M82	0.92559
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94801	1
IL2-6/WTpooled	0.86036	0.383
IL7-5/WTpooled	0.93473	1
IL7-3/WTpooled	0.9845	1
IL12-4/WTpooled	0.93908	1
IL1-4/WTpooled	0.9934	1
WT/WTpooled	1.06636	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18202	0.369
DC3000/delta hrp 6h	1.18381	0.777
DC3000/delta hrp 12h	1.79269	1
DC3000/delta hrp 24h	0.82154	0.257

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	1.14428	1
Exp 36h	0.76098	0.406
Exp 60h	0.64476	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.43716	0.157
transgenic ySAMdc/azygous control (breaker)	0.83323	0.49
transgenic ySAMdc/azygous control (red)	0.83976	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02717	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.15887	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.45231	1
Manapal/WT (break)	0.82059	1
Manapal/WT (red)	1.223	0.126