Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.2.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0107	0.938
27DAP/17DAP	1.02141	0.926
39DAP/27DAP	1.08607	0.919
41DAP/39DAP	1.20555	0.437
42DAP/41DAP	1.10882	0.903
43DAP/42DAP	0.97401	0.877
47DAP/43DAP	0.85616	0.546
52DAP/47DAP	1.64891	0.147
57DAP/52DAP	0.87864	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29774	0.139
17DAP/reference	1.16428	0.508
27DAP/reference	0.92469	0.406
39DAP/reference	1.08733	0.639
41DAP/reference	1.29701	0.019
42DAP/reference	1.73923	0.002
43DAP/reference	1.23904	0.118
47DAP/reference	1.75373	0.002
52DAP/reference	1.45179	0.04
57DAP/reference	1.01534	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18418	0.482
27DAP/17DAP	0.92039	0.684
39DAP/27DAP	1.08703	0.499
41DAP/39DAP	0.90153	0.68
42DAP/41DAP	1.09859	0.622
43DAP/42DAP	1.06251	0.513
47DAP/43DAP	1.03042	0.884
52DAP/47DAP	1.05944	0.919
57DAP/52DAP	0.87327	0.337
57DAP/7DAP	0.91206	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94148	0.326
17DAP/reference	0.99913	0.599
27DAP/reference	1.11509	0.107
39DAP/reference	1.00825	0.64
41DAP/reference	1.12434	0.26
42DAP/reference	1.37571	0.03
43DAP/reference	1.40525	0.015
47DAP/reference	1.3349	0.063
52DAP/reference	1.2826	0.071
57DAP/reference	1.11034	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48007	0.044
17DAP/reference	1.92027	0.007
27DAP/reference	1.35188	0.065
39DAP/reference	1.24932	0.188
41DAP/reference	1.20695	0.248
42DAP/reference	1.34949	0.038
43DAP/reference	1.25102	0.347
47DAP/reference	1.29388	0.016
52DAP/reference	1.10202	0.596
57DAP/reference	1.5122	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14295	0.616
17DAP/reference	1.4119	0.057
27DAP/reference	1.01497	0.903
39DAP/reference	1.154	0.528
41DAP/reference	1.13114	0.397
42DAP/reference	1.06267	0.701
43DAP/reference	1.53149	0.069
47DAP/reference	1.25222	0.085
52DAP/reference	1.42826	0.121
57DAP/reference	1.57809	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1138	0.966
26DAP/20DAP	1.10702	0.562
34DAP/26DAP	0.92156	0.741
51DAP/34DAP	1.11904	0.957
52DAP/51DAP	0.82582	1
53DAP/52DAP	1.33288	0.398
55DAP/53DAP	0.85873	0.273
57DAP/55DAP	1.15144	0.898
62DAP/57DAP	0.91776	0.994
68DAP/62DAP	0.91607	0.769
68DAP/14DAP	0.53653

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24933	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.07816	0.113
Mature Green Tomato/Ripe Tomato	1.01948	1
Immature Eggplant/Mature Eggplant	0.53914	0.063
Ripe Pepper/Ripe Tomato	0.54977	0.224
Mature Eggplant/Ripe Tomato	0.84266	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14552	0.877
1-1-2/M82	0.9921
12-2/M82	N/A	N/A
12-4/M82	0.99686	1
1-3/M82	0.99223	1
2-1-1/M82	1.17398	0.689
2-1/M82	1.04756
2-6/M82	0.93321	1
3-2/M82	1.1135
4-1-1/M82	1.05551	1
4-1/M82	0.92714	1
4-3-2/M82	1.09909	0.508
4-3/M82	0.95546	0.72
5-3/M82	1.00149	1
6-2/M82	0.97582	1
6-3/M82	1.0039	1
7-1/M82	0.93797	1
7-2/M82	0.9454	0.796
9-3-2/M82	0.93499	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.46706	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.02185	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.20467	1
WT/WTpooled	N/A	N/A

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	1.52954	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99977	1
DC3000/delta hrp 6h	1.05884	1
DC3000/delta hrp 12h	1.14338	1
DC3000/delta hrp 24h	1.0756	0.535

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39703
DC3000 delta B/DC3000 delta AB	1.3121	0.177

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91268	1
Exp 36h	1.13487	1
Exp 60h	1.10565	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00293	1
Var 0h	0.35883	1
Var 12h I row2-row1	0.93684	0.705
Var 12h NI row2-row1	1.57627	1
Var 36h I row2-row1	1.20986	0.368
Var 36h NI row2-row1	1.06394	1
Var 60h I row2-row1	0.78411	0.306
Var 60h NI row2-row1	0.86427	0.408
Time course 0hI-0hNI	0.95243	0.679
Time course 12hI-12hNI	1.06214	0.682
Time course 36hI-36hNI	1.30916	0.01
Time course 60hI-60hNI	2.84047	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)	1.27517	0.271
transgenic ySAMdc/azygous control (breaker)	1.28849	0.162
transgenic ySAMdc/azygous control (red)	0.98149	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98631	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.61028	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10051	1
Manapal/WT (break)	0.76088	1
Manapal/WT (red)	0.90365	0.188