Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85381	0.178
27DAP/17DAP	1.09149	0.877
39DAP/27DAP	1.17292	0.692
41DAP/39DAP	1.04249	1
42DAP/41DAP	1.08724	0.971
43DAP/42DAP	0.8872	0.712
47DAP/43DAP	0.81973	0.449
52DAP/47DAP	1.21992	0.538
57DAP/52DAP	0.93411	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95741	0.379
17DAP/reference	0.97581	0.597
27DAP/reference	0.95741	0.327
39DAP/reference	0.97891	0.565
41DAP/reference	0.98482	0.814
42DAP/reference	0.92096	0.024
43DAP/reference	1.00242	1
47DAP/reference	1.04987	0.448
52DAP/reference	0.93636	0.244
57DAP/reference	0.87146	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88933	0.251
27DAP/17DAP	1.1962	0.429
39DAP/27DAP	0.85078	0.161
41DAP/39DAP	1.00611	0.921
42DAP/41DAP	0.99277	0.87
43DAP/42DAP	1.06169	0.513
47DAP/43DAP	0.96165	0.743
52DAP/47DAP	0.88559	0.466
57DAP/52DAP	0.86	0.441
57DAP/7DAP	0.69151

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16537	0.09
17DAP/reference	1.07967	0.147
27DAP/reference	1.13199	0.01
39DAP/reference	1.24847	0.026
41DAP/reference	1.03815	0.723
42DAP/reference	1.02048	0.686
43DAP/reference	1.25141	0.045
47DAP/reference	1.10691	0.868
52DAP/reference	0.97498	0.435
57DAP/reference	0.89602	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05196	0.679
17DAP/reference	1.02809	0.806
27DAP/reference	0.95905	0.438
39DAP/reference	1.0776	0.449
41DAP/reference	0.96693	0.357
42DAP/reference	1.0058	1
43DAP/reference	1.07894	0.713
47DAP/reference	1.03107	0.675
52DAP/reference	0.95405	0.239
57DAP/reference	0.96629	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04047	0.709
17DAP/reference	0.98499	0.709
27DAP/reference	1.03401	0.777
39DAP/reference	1.0211	0.65
41DAP/reference	1.12191	0.134
42DAP/reference	1.03726	0.775
43DAP/reference	1.04719	0.555
47DAP/reference	1.06548	0.207
52DAP/reference	1.13152	0.412
57DAP/reference	1.02281	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91877	0.42
26DAP/20DAP	0.98305	1
34DAP/26DAP	0.99553	1
51DAP/34DAP	1.14031	0.597
52DAP/51DAP	0.97776	1
53DAP/52DAP	1.20828	0.187
55DAP/53DAP	0.90053	0.478
57DAP/55DAP	2.31204	0.764
62DAP/57DAP	1.07712	0.8
68DAP/62DAP	1.01122	1
68DAP/14DAP	1.29839	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18611	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.35977	0.058
Mature Green Tomato/Ripe Tomato	0.89543	0.347
Immature Eggplant/Mature Eggplant	0.80576	0.063
Ripe Pepper/Ripe Tomato	1.24907	0.258
Mature Eggplant/Ripe Tomato	1.00405	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01404	1
1-1-2/M82	1.05631	1
12-2/M82	1.10981	1
12-4/M82	0.97227	1
1-3/M82	1.04084	1
2-1-1/M82	1.12488	0.764
2-1/M82	1.21672	1
2-6/M82	1.12448	1
3-2/M82	1.0232
4-1-1/M82	0.905	0.962
4-1/M82	1.15719	1
4-3-2/M82	0.99782	1
4-3/M82	0.81969	0.72
5-3/M82	0.94875	1
6-2/M82	0.8419	1
6-3/M82	1.01202	1
7-1/M82	1.19357	0.992
7-2/M82	0.94701	0.881
9-3-2/M82	0.84004	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.88611
IL12-4/WTpooled	1.01346	0.785
IL1-4/WTpooled	1.72488	1
WT/WTpooled	0.96315	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	1.03467	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98925	1
DC3000/delta hrp 6h	1.03055	1
DC3000/delta hrp 12h	0.97485	1
DC3000/delta hrp 24h	1.08895	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97085	1
DC3000 delta B/DC3000 delta AB	1.39658	0.109

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00123	1
Exp 36h	0.98345	0.943
Exp 60h	1.02205	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0245	1
Var 0h	0.37242	1
Var 12h I row2-row1	1.01207	0.544
Var 12h NI row2-row1	1.04081	1
Var 36h I row2-row1	1.19719	0.601
Var 36h NI row2-row1	0.98817	0.852
Var 60h I row2-row1	0.94461	0.582
Var 60h NI row2-row1	0.92146	0.516
Time course 0hI-0hNI	0.98987	1
Time course 12hI-12hNI	1.01753	0.818
Time course 36hI-36hNI	1.09717	0.013
Time course 60hI-60hNI	1.31087	0.029

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)	0.97472	0.485
transgenic ySAMdc/azygous control (breaker)	0.91502	0.251
transgenic ySAMdc/azygous control (red)	0.99512	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0179	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07595	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.30535	0.09
Manapal/WT (break)	0.83926	0.299
Manapal/WT (red)	0.93627	0.188