Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.11.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06576	0.858
27DAP/17DAP	0.83442	0.7
39DAP/27DAP	1.19939	0.655
41DAP/39DAP	1.15579	0.708
42DAP/41DAP	1.05079	1
43DAP/42DAP	1.05891	0.937
47DAP/43DAP	0.94279	0.716
52DAP/47DAP	1.00755	0.842
57DAP/52DAP	1.11045	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03817	0.872
17DAP/reference	1.11868	0.066
27DAP/reference	0.88085	0.134
39DAP/reference	1.11097	0.162
41DAP/reference	1.31634	0.016
42DAP/reference	0.94785	0.182
43DAP/reference	0.97008	0.653
47DAP/reference	0.9609	0.392
52DAP/reference	1.05243	0.524
57DAP/reference	0.9871	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19283
27DAP/17DAP	1.05127
39DAP/27DAP	1.31501	0.429
41DAP/39DAP	0.90593	0.793
42DAP/41DAP	1.06458	0.87
43DAP/42DAP	1.19223	0.746
47DAP/43DAP	0.99535	0.928
52DAP/47DAP	0.92218	0.726
57DAP/52DAP	1.26813	0.382
57DAP/7DAP	0.38488

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93606	0.361
17DAP/reference	0.97562	0.518
27DAP/reference	1.20834	0.026
39DAP/reference	0.71143	0.012
41DAP/reference	0.74717	0.028
42DAP/reference	0.88643	0.117
43DAP/reference	0.91266	0.145
47DAP/reference	0.8329	0.101
52DAP/reference	0.9096	0.196
57DAP/reference	0.96158	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10614	0.43
17DAP/reference	1.16953	0.385
27DAP/reference	1.46854	0.063
39DAP/reference	1.33867	0.061
41DAP/reference	1.38118	0.053
42DAP/reference	1.26088	0.17
43DAP/reference	1.60501	0.036
47DAP/reference	1.20736	0.232
52DAP/reference	1.30405	0.053
57DAP/reference	1.31791	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11821	0.244
17DAP/reference	1.05382	0.738
27DAP/reference	1.0802	0.072
39DAP/reference	1.05887	0.365
41DAP/reference	1.02615	0.961
42DAP/reference	1.11258	0.327
43DAP/reference	1.13078	0.314
47DAP/reference	1.06825	1
52DAP/reference	0.99502	0.763
57DAP/reference	1.0034	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87946	1
26DAP/20DAP	0.8417	1
34DAP/26DAP	0.76531	0.728
51DAP/34DAP	0.79734	0.698
52DAP/51DAP	1.73951	0.054
53DAP/52DAP	1.1795	0.944
55DAP/53DAP	1.03861	0.982
57DAP/55DAP	0.87567	0.76
62DAP/57DAP	1.08858	0.569
68DAP/62DAP	0.97656	0.834
68DAP/14DAP	0.95102

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04314	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.62749
IL2-6/WTpooled	0.67357	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.59852	1
IL12-4/WTpooled	1.17576	0.785
IL1-4/WTpooled	0.79783	0.394
WT/WTpooled	1.10082	0.874

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	1.91735	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00926	1
DC3000/delta hrp 6h	2.45336
DC3000/delta hrp 12h	0.96774	1
DC3000/delta hrp 24h	2.36936	0.024

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.04004
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	1.20411	0.254
Exp 36h	1.08328	1
Exp 60h	1.23884	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98479	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.31011	0.215
Var 12h NI row2-row1	0.66592	1
Var 36h I row2-row1	0.92561	1
Var 36h NI row2-row1	0.67932	1
Var 60h I row2-row1	0.82255	0.832
Var 60h NI row2-row1	1.24002	0.904
Time course 0hI-0hNI	0.99203	1
Time course 12hI-12hNI	2.22605	0.019
Time course 36hI-36hNI	1.63545	0.005
Time course 60hI-60hNI	1.7782	0.011

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)	1.01843	0.921
transgenic ySAMdc/azygous control (breaker)	0.90008	0.251
transgenic ySAMdc/azygous control (red)	0.95985	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0031	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04295	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01474	1
Manapal/WT (break)	1.10463	1
Manapal/WT (red)	0.83422	0.728