Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9961	0.811
27DAP/17DAP	0.96993	0.934
39DAP/27DAP	1.22436	0.833
41DAP/39DAP	0.9854	0.922
42DAP/41DAP	0.95998	1
43DAP/42DAP	0.95353	0.851
47DAP/43DAP	1.00513	0.902
52DAP/47DAP	0.982	0.907
57DAP/52DAP	0.79833	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86869	0.07
17DAP/reference	0.88538	0.24
27DAP/reference	0.88202	0.176
39DAP/reference	0.87521	0.074
41DAP/reference	0.87625	0.031
42DAP/reference	1.06231	0.585
43DAP/reference	0.92123	0.302
47DAP/reference	0.84059	0.019
52DAP/reference	0.90474	0.215
57DAP/reference	1.06543	0.405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18541	0.455
27DAP/17DAP	0.89575	0.363
39DAP/27DAP	0.94679	0.673
41DAP/39DAP	1.02527	1
42DAP/41DAP	1.22247	0.03
43DAP/42DAP	0.90784	0.415
47DAP/43DAP	0.9003	0.534
52DAP/47DAP	2.6024	0.044
57DAP/52DAP	2.6654	0.03
57DAP/7DAP	1.98747	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89479	0.078
17DAP/reference	0.86149	0.028
27DAP/reference	0.87394	0.01
39DAP/reference	0.84893	0.011
41DAP/reference	0.8032	0.026
42DAP/reference	0.78445	0.019
43DAP/reference	0.80106	0.016
47DAP/reference	0.90053	0.383
52DAP/reference	0.77505	0.021
57DAP/reference	0.77459	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87614	0.222
17DAP/reference	0.94536	0.367
27DAP/reference	1.09694	0.583
39DAP/reference	1.08825	0.463
41DAP/reference	1.10739	0.439
42DAP/reference	0.9733	0.482
43DAP/reference	1.05802	0.986
47DAP/reference	1.16613	0.153
52DAP/reference	0.91092	0.131
57DAP/reference	1.06503	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91685	0.092
17DAP/reference	0.9451	0.488
27DAP/reference	0.8226	0.037
39DAP/reference	0.85763	0.05
41DAP/reference	0.87144	0.025
42DAP/reference	0.9872	0.816
43DAP/reference	0.86458	0.064
47DAP/reference	0.65789	0.01
52DAP/reference	0.77325	0.112
57DAP/reference	0.89721	0.18

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03518	1
26DAP/20DAP	2.16552	1
34DAP/26DAP	5.33573	0.819
51DAP/34DAP	2.16307	0.775
52DAP/51DAP	5.49084	0.033
53DAP/52DAP	0.57583	0.049
55DAP/53DAP	1.63853	0.022
57DAP/55DAP	0.39006	0.038
62DAP/57DAP	1.48935	0.723
68DAP/62DAP	1.28865	0.912
68DAP/14DAP	0.75785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.17477	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79099	0.377
Immature Eggplant/Mature Eggplant	8.12463
Ripe Pepper/Ripe Tomato	0.18076
Mature Eggplant/Ripe Tomato	0.3536	0.234

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	1.56764
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	1.07467	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99817
IL12-4/WTpooled	0.57582	0.71
IL1-4/WTpooled	1.0071	1
WT/WTpooled	0.96251	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	1.50698	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.32401	0.774
DC3000/delta hrp 6h	1.1534	1
DC3000/delta hrp 12h	0.8914	1
DC3000/delta hrp 24h	1.96118	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22731	0.053
DC3000 delta B/DC3000 delta AB	1.31277	0.226

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.30686	1
Exp 36h	2.84784	0.693
Exp 60h	2.21617	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04906	1
Var 0h	0.56563	0.222
Var 12h I row2-row1	0.93577	0.856
Var 12h NI row2-row1	1.17623	1
Var 36h I row2-row1	1.1843	1
Var 36h NI row2-row1	1.64013	0.276
Var 60h I row2-row1	0.6331	0.293
Var 60h NI row2-row1	0.94327	1
Time course 0hI-0hNI	0.87884	0.399
Time course 12hI-12hNI	1.28805	0.611
Time course 36hI-36hNI	1.28475	0.248
Time course 60hI-60hNI	1.63227	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)	1.55714	0.238
transgenic ySAMdc/azygous control (breaker)	1.18505	1
transgenic ySAMdc/azygous control (red)	1.34839	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04056	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98827	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.46872	0.088
Manapal/WT (break)	0.97861	1
Manapal/WT (red)	0.65716	0.424