Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02469	0.947
27DAP/17DAP	0.88227	0.697
39DAP/27DAP	0.67653	0.392
41DAP/39DAP	1.34442	0.403
42DAP/41DAP	0.98171	1
43DAP/42DAP	0.99668	0.937
47DAP/43DAP	1.11964	0.943
52DAP/47DAP	1.29278	0.449
57DAP/52DAP	0.73902	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11536	0.872
17DAP/reference	1.33113	0.096
27DAP/reference	1.16804	0.17
39DAP/reference	1.03127	0.975
41DAP/reference	1.316	0.019
42DAP/reference	1.07247	0.144
43DAP/reference	1.01478	0.928
47DAP/reference	1.12088	0.101
52DAP/reference	0.85084	0.215
57DAP/reference	0.82073	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97987	0.763
27DAP/17DAP	0.86577	0.648
39DAP/27DAP	0.95716	0.712
41DAP/39DAP	0.98716	1
42DAP/41DAP	0.97169	0.751
43DAP/42DAP	0.92414	0.172
47DAP/43DAP	1.0821	0.901
52DAP/47DAP	1.11483	0.645
57DAP/52DAP	0.87439	0.399
57DAP/7DAP	1.17414	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79989	0.086
17DAP/reference	0.80142	0.011
27DAP/reference	0.88629	0.071
39DAP/reference	0.743	0.011
41DAP/reference	0.79826	0.036
42DAP/reference	0.78419	0.014
43DAP/reference	0.68982	0.011
47DAP/reference	0.81821	0.05
52DAP/reference	0.63888	0.012
57DAP/reference	0.74384	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27218	0.226
17DAP/reference	1.21032	0.025
27DAP/reference	1.03934	1
39DAP/reference	0.87727	0.189
41DAP/reference	0.99766	0.683
42DAP/reference	1.10092	0.317
43DAP/reference	1.60753	0.011
47DAP/reference	1.11027	0.087
52DAP/reference	1.00663	0.761
57DAP/reference	1.31238	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8388	0.183
17DAP/reference	0.9274	0.444
27DAP/reference	0.78913	0.053
39DAP/reference	0.7352	0.021
41DAP/reference	0.83931	0.058
42DAP/reference	0.76954	0.015
43DAP/reference	0.7204	0.019
47DAP/reference	1.10538	0.443
52DAP/reference	1.01066	0.821
57DAP/reference	0.70078	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12397	0.916
26DAP/20DAP	0.94154	1
34DAP/26DAP	1.1208	1
51DAP/34DAP	1.0867	0.829
52DAP/51DAP	1.03025	0.954
53DAP/52DAP	1.04002	0.97
55DAP/53DAP	1.24035	0.229
57DAP/55DAP	1.02849	0.986
62DAP/57DAP	1.05976	0.935
68DAP/62DAP	0.95229	0.747
68DAP/14DAP	0.66463	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.48652	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.03471	0.881
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.63377
Mature Eggplant/Ripe Tomato	0.65506

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89235	0.883
1-1-2/M82	0.75222
12-2/M82	1.23636	1
12-4/M82	0.89618	1
1-3/M82	0.77814	0.378
2-1-1/M82	1.00953	1
2-1/M82	N/A	N/A
2-6/M82	1.09987	0.695
3-2/M82	0.84812	0.455
4-1-1/M82	1.08002	1
4-1/M82	1.3626
4-3-2/M82	0.88059
4-3/M82	N/A	N/A
5-3/M82	0.90121	0.49
6-2/M82	0.74265
6-3/M82	1.02578	1
7-1/M82	N/A	N/A
7-2/M82	0.89434	0.796
9-3-2/M82	0.89739	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.40863
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.2214
IL12-4/WTpooled	0.73045
IL1-4/WTpooled	0.89651	0.562
WT/WTpooled	0.95952	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	0.91504	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04494	0.921
DC3000/delta hrp 6h	1.33727	1
DC3000/delta hrp 12h	1.27105	1
DC3000/delta hrp 24h	1.06333	0.582

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	2.60586

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91157	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.01242	0.795
Var 12h NI row2-row1	0.83978	0.488
Var 36h I row2-row1	0.90039	1
Var 36h NI row2-row1	1.03155	1
Var 60h I row2-row1	1.17457	0.271
Var 60h NI row2-row1	0.99383	1
Time course 0hI-0hNI	1.02149	0.867
Time course 12hI-12hNI	1.00473	0.892
Time course 36hI-36hNI	0.99976	0.811
Time course 60hI-60hNI	1.06183	0.254

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)	0.86553	0.267
transgenic ySAMdc/azygous control (breaker)	0.95771	0.49
transgenic ySAMdc/azygous control (red)	0.9883	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02779	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.06564	1