Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.6.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95751	0.722
27DAP/17DAP	0.84135	0.462
39DAP/27DAP	1.1209	0.804
41DAP/39DAP	1.069	0.78
42DAP/41DAP	1.09764	0.994
43DAP/42DAP	0.8966	0.767
47DAP/43DAP	1.19193	0.659
52DAP/47DAP	1.47724	0.945
57DAP/52DAP	0.95977	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77174	0.025
17DAP/reference	0.96271	0.63
27DAP/reference	0.88327	0.083
39DAP/reference	1.01516	0.857
41DAP/reference	0.95716	0.542
42DAP/reference	1.0038	0.587
43DAP/reference	1.01224	0.904
47DAP/reference	0.98241	0.445
52DAP/reference	0.87341	0.143
57DAP/reference	0.99048	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02963	0.732
27DAP/17DAP	1.02416	1
39DAP/27DAP	0.95071	0.673
41DAP/39DAP	1.00305	1
42DAP/41DAP	1.00657	0.924
43DAP/42DAP	1.22138	0.094
47DAP/43DAP	1.053	0.765
52DAP/47DAP	0.88881	0.645
57DAP/52DAP	0.91066	0.415
57DAP/7DAP	0.92558	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03091	1
17DAP/reference	0.85516	0.039
27DAP/reference	0.97055	0.43
39DAP/reference	0.89769	0.307
41DAP/reference	1.26589	0.375
42DAP/reference	0.8618	0.222
43DAP/reference	1.0042	0.555
47DAP/reference	0.97868	0.671
52DAP/reference	1.21106	0.13
57DAP/reference	1.07141	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90179	0.318
17DAP/reference	0.8687	0.099
27DAP/reference	0.88196	0.181
39DAP/reference	0.92101	0.289
41DAP/reference	0.96118	0.357
42DAP/reference	0.80457	0.237
43DAP/reference	0.7686	0.062
47DAP/reference	0.92768	0.284
52DAP/reference	1.08567	0.393
57DAP/reference	0.85538	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96575	0.249
17DAP/reference	0.90037	0.381
27DAP/reference	1.28529	0.644
39DAP/reference	1.36999
41DAP/reference	1.06178	0.57
42DAP/reference	1.09819	0.943
43DAP/reference	1.06469	0.827
47DAP/reference	1.02999	0.994
52DAP/reference	1.05556	0.904
57DAP/reference	1.06064	0.436

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88061	0.787
26DAP/20DAP	1.05365	0.941
34DAP/26DAP	0.95333	0.945
51DAP/34DAP	1.01728	0.936
52DAP/51DAP	0.76484	1
53DAP/52DAP	1.25112	0.458
55DAP/53DAP	1.20861	0.319
57DAP/55DAP	1.33669	0.188
62DAP/57DAP	1.53111
68DAP/62DAP	1.4855	0.135
68DAP/14DAP	1.68816	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22153	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70305	0.188
Mature Green Tomato/Ripe Tomato	0.99725	0.835
Immature Eggplant/Mature Eggplant	0.97701	0.651
Ripe Pepper/Ripe Tomato	5.54476	1
Mature Eggplant/Ripe Tomato	3.29231	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91163	0.934
1-1-2/M82	0.93108	1
12-2/M82	1.12619	1
12-4/M82	0.90234	1
1-3/M82	0.90556	1
2-1-1/M82	0.97616	1
2-1/M82	N/A	N/A
2-6/M82	0.84967	0.501
3-2/M82	0.73115
4-1-1/M82	1.01412	1
4-1/M82	1.37187	0.853
4-3-2/M82	0.80044
4-3/M82	1.05149	1
5-3/M82	0.92619	0.395
6-2/M82	0.76566	1
6-3/M82	0.90927	1
7-1/M82	1.07954	1
7-2/M82	0.90785	0.881
9-3-2/M82	0.97995	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07063	0.493
IL2-6/WTpooled	1.05872	0.788
IL7-5/WTpooled	0.97136	1
IL7-3/WTpooled	0.98134	1
IL12-4/WTpooled	0.91509	0.71
IL1-4/WTpooled	1.03953	1
WT/WTpooled	1.05337	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	1.15147	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02412	0.921
DC3000/delta hrp 6h	1.02752	0.95
DC3000/delta hrp 12h	1.00021	1
DC3000/delta hrp 24h	1.24901	0.232

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	1.09908	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05788	1
Exp 36h	1.30784	0.693
Exp 60h	1.28858	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9881	1
Var 0h	2.71499	0.936
Var 12h I row2-row1	1.3044	0.406
Var 12h NI row2-row1	0.92958	0.627
Var 36h I row2-row1	0.97548	1
Var 36h NI row2-row1	1.10354	1
Var 60h I row2-row1	0.93084	0.952
Var 60h NI row2-row1	0.8856	0.516
Time course 0hI-0hNI	0.97644	0.861
Time course 12hI-12hNI	1.13611	0.197
Time course 36hI-36hNI	1.7313	0.005
Time course 60hI-60hNI	2.53246	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)	1.24765	0.256
transgenic ySAMdc/azygous control (breaker)	0.77169	0.15
transgenic ySAMdc/azygous control (red)	1.00609	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99678	0.858

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)	1.51252	0.087
Manapal/WT (break)	1.28139	0.13
Manapal/WT (red)	0.77516	0.315