Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.17.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91075	0.551
27DAP/17DAP	1.11326	0.9
39DAP/27DAP	0.93094	0.652
41DAP/39DAP	1.09826	0.619
42DAP/41DAP	0.81074	0.397
43DAP/42DAP	1.02687	1
47DAP/43DAP	1.1835	0.809
52DAP/47DAP	0.90544	0.712
57DAP/52DAP	1.35838	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84546	0.03
17DAP/reference	0.89815	0.091
27DAP/reference	1.04547	0.587
39DAP/reference	0.9212	0.037
41DAP/reference	0.95939	0.201
42DAP/reference	0.8897	0.009
43DAP/reference	0.89134	0.031
47DAP/reference	0.95635	0.224
52DAP/reference	0.9806	0.449
57DAP/reference	1.09729	0.195

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93721	0.629
27DAP/17DAP	1.60599	0.075
39DAP/27DAP	1.03281	0.691
41DAP/39DAP	0.77597	0.169
42DAP/41DAP	1.14208	0.425
43DAP/42DAP	1.05085	0.788
47DAP/43DAP	1.37035	0.948
52DAP/47DAP	0.88941	0.624
57DAP/52DAP	0.85085	0.198
57DAP/7DAP	0.98164	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87719	0.157
17DAP/reference	1.04749	1
27DAP/reference	1.0391	1
39DAP/reference	0.88597	0.23
41DAP/reference	1.22614	0.207
42DAP/reference	1.14696	0.534
43DAP/reference	1.13789	0.637
47DAP/reference	1.06705	1
52DAP/reference	0.92456	0.363
57DAP/reference	1.04455	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90934	0.296
17DAP/reference	0.78453	0.004
27DAP/reference	0.82836	0.043
39DAP/reference	0.87203	0.076
41DAP/reference	0.84284	0.067
42DAP/reference	0.86196	0.037
43DAP/reference	1.02228	0.706
47DAP/reference	0.83414	0.011
52DAP/reference	0.87762	0.01
57DAP/reference	0.93938	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11525	0.939
17DAP/reference	1.0843	0.738
27DAP/reference	1.0016	1
39DAP/reference	1.03369	1
41DAP/reference	0.88309	0.264
42DAP/reference	0.88555	0.134
43DAP/reference	0.82553	0.106
47DAP/reference	0.99567	0.667
52DAP/reference	0.81865	0.119
57DAP/reference	0.92401	0.238

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09187	0.966
26DAP/20DAP	0.8716	0.512
34DAP/26DAP	0.9406	0.857
51DAP/34DAP	2.32323	0.032
52DAP/51DAP	0.79071	1
53DAP/52DAP	1.60611	0.029
55DAP/53DAP	0.72428	0.106
57DAP/55DAP	1.14606	0.826
62DAP/57DAP	0.9882	0.994
68DAP/62DAP	1.22578	0.507
68DAP/14DAP	1.36974	0.074

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.36327	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6241	0.149
Mature Green Tomato/Ripe Tomato	1.57575	0.044
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.03101	0.258
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07545	0.742
1-1-2/M82	1.13611	0.977
12-2/M82	1.03908	1
12-4/M82	1.09004	1
1-3/M82	0.8366	0.441
2-1-1/M82	1.14273	0.764
2-1/M82	1.33089	1
2-6/M82	1.09985	0.695
3-2/M82	0.82621	1
4-1-1/M82	0.99888	1
4-1/M82	1.11602
4-3-2/M82	1.268
4-3/M82	0.82952	0.578
5-3/M82	1.10292	1
6-2/M82	0.9002	0.497
6-3/M82	0.83457	1
7-1/M82	0.84494	1
7-2/M82	1.07303
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70821
IL2-6/WTpooled	0.75175	0.358
IL7-5/WTpooled	0.1589
IL7-3/WTpooled	0.7057	0.31
IL12-4/WTpooled	1.0027	1
IL1-4/WTpooled	0.88186	0.699
WT/WTpooled	1.16108	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	1.12225	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00598	1
DC3000/delta hrp 6h	0.94934	0.95
DC3000/delta hrp 12h	0.91555	1
DC3000/delta hrp 24h	0.97391	0.851

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87107	0.036
DC3000 delta B/DC3000 delta AB	1.02935	0.748

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92797	1
Exp 36h	0.73575	0.449
Exp 60h	0.89195	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00349	1
Var 0h	0.38204	0.206
Var 12h I row2-row1	0.97254	0.948
Var 12h NI row2-row1	1.03763	1
Var 36h I row2-row1	1.18673	0.489
Var 36h NI row2-row1	1.14639	0.482
Var 60h I row2-row1	0.77191	0.292
Var 60h NI row2-row1	0.96978	1
Time course 0hI-0hNI	0.94355	0.702
Time course 12hI-12hNI	0.97548	0.86
Time course 36hI-36hNI	0.82999	0.156
Time course 60hI-60hNI	0.49201	0.006

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)	0.85052	0.428
transgenic ySAMdc/azygous control (breaker)	0.99956	1
transgenic ySAMdc/azygous control (red)	1.24789	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.67541	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90008	1
Manapal/WT (break)	1.00372	1
Manapal/WT (red)	0.7722	0.274