Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.4.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08954	0.912
27DAP/17DAP	0.99875	0.947
39DAP/27DAP	1.10264	0.933
41DAP/39DAP	0.92271	0.766
42DAP/41DAP	1.50232	0.302
43DAP/42DAP	0.75925	0.566
47DAP/43DAP	0.98856	0.736
52DAP/47DAP	0.98832	0.898
57DAP/52DAP	1.14313	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94577	0.432
17DAP/reference	1.18294	0.016
27DAP/reference	1.11137	0.034
39DAP/reference	1.02965	0.664
41DAP/reference	1.11569	0.047
42DAP/reference	0.8969	0.013
43DAP/reference	0.99488	0.861
47DAP/reference	0.91109	0.015
52DAP/reference	0.93813	0.258
57DAP/reference	0.8242	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	1.05257
39DAP/27DAP	0.86341
41DAP/39DAP	N/A	N/A
42DAP/41DAP	0.62053	0.021
43DAP/42DAP	0.84918
47DAP/43DAP	0.80954
52DAP/47DAP	1.01871	0.941
57DAP/52DAP	0.17347
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02949	0.843
17DAP/reference	1.27672	0.01
27DAP/reference	1.29828	0.049
39DAP/reference	1.39404	0.006
41DAP/reference	1.48753	0.017
42DAP/reference	1.47269	0.009
43DAP/reference	1.38695	0.016
47DAP/reference	0.94961	0.504
52DAP/reference	1.22507	0.149
57DAP/reference	1.3753	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07207	0.449
17DAP/reference	1.01571	0.859
27DAP/reference	0.8524	0.139
39DAP/reference	0.88814	0.257
41DAP/reference	0.97206	0.422
42DAP/reference	0.92114	0.121
43DAP/reference	0.97387	0.581
47DAP/reference	0.90968	0.015
52DAP/reference	1.05779	0.498
57DAP/reference	1.00737	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25469	0.043
17DAP/reference	1.14769	0.39
27DAP/reference	1.32792	0.023
39DAP/reference	1.17422	0.039
41DAP/reference	1.14656	0.471
42DAP/reference	0.93785	0.552
43DAP/reference	0.96035	0.484
47DAP/reference	1.0464	0.309
52DAP/reference	1.17063	0.247
57DAP/reference	0.78643	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01005	1
26DAP/20DAP	0.53645
34DAP/26DAP	1.03853	1
51DAP/34DAP	1.05855	0.883
52DAP/51DAP	1.63461	0.742
53DAP/52DAP	1.02466	1
55DAP/53DAP	0.98624	0.908
57DAP/55DAP	1.0213	0.955
62DAP/57DAP	1.08437	0.935
68DAP/62DAP	0.96538	0.81
68DAP/14DAP	0.89063	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77997	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01255	0.847
Mature Green Tomato/Ripe Tomato	3.9944	0.021
Immature Eggplant/Mature Eggplant	2.57026	0.05
Ripe Pepper/Ripe Tomato	6.19582	0.256
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	0.89208
12-2/M82	0.82987
12-4/M82	0.8431	0.619
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	1.09967
3-2/M82	0.83447
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	1.04675	1
6-2/M82	1.06327
6-3/M82	1.14593
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.8486

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89817	0.321
IL2-6/WTpooled	1.07196	0.788
IL7-5/WTpooled	0.80376	1
IL7-3/WTpooled	1.0348	1
IL12-4/WTpooled	1.3424	0.673
IL1-4/WTpooled	0.92055	0.457
WT/WTpooled	1.09498	0.789

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00291	1
DC3000/delta hrp 6h	1.1357	0.95
DC3000/delta hrp 12h	1.27519	1
DC3000/delta hrp 24h	0.47855	0.034

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96395	1
Exp 36h	0.92009	0.82
Exp 60h	1.00575	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.93708
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.98276	0.862
transgenic ySAMdc/azygous control (breaker)	1.79643	0.165
transgenic ySAMdc/azygous control (red)	1.18631	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98948	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.37968	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	9.7175	0.083
Manapal/WT (break)	2.80966	0.14
Manapal/WT (red)	2.93457	0.142