Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.40331	0.014
27DAP/17DAP	0.83434	0.536
39DAP/27DAP	0.99407	0.733
41DAP/39DAP	1.0552	0.85
42DAP/41DAP	1.04885	1
43DAP/42DAP	1.05311	0.937
47DAP/43DAP	1.33792	0.313
52DAP/47DAP	1.13807	0.694
57DAP/52DAP	1.16407	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36286	0.041
17DAP/reference	1.16342	0.029
27DAP/reference	1.0427	0.735
39DAP/reference	1.07441	0.504
41DAP/reference	1.06459	0.421
42DAP/reference	0.93386	0.085
43DAP/reference	1.00967	0.957
47DAP/reference	0.95791	0.174
52DAP/reference	0.84069	0.125
57DAP/reference	0.85205	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.38615	0.038
27DAP/17DAP	1.16811	0.514
39DAP/27DAP	0.934	0.759
41DAP/39DAP	1.06166	0.781
42DAP/41DAP	0.93433	0.538
43DAP/42DAP	0.94616	0.538
47DAP/43DAP	1.12123	0.448
52DAP/47DAP	1.13838	0.616
57DAP/52DAP	0.77576	0.104
57DAP/7DAP	0.5437	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.83903	0.025
17DAP/reference	2.23728	0.006
27DAP/reference	1.78281	0.006
39DAP/reference	2.32532	0.006
41DAP/reference	2.16095	0.016
42DAP/reference	2.13702	0.006
43DAP/reference	2.59089	0.007
47DAP/reference	1.55386	0.36
52DAP/reference	1.8691	0.007
57DAP/reference	1.82333	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17269	0.05
17DAP/reference	0.91249	0.083
27DAP/reference	0.92351	0.317
39DAP/reference	0.93111	0.314
41DAP/reference	0.86738	0.118
42DAP/reference	0.9516	0.261
43DAP/reference	0.78412	0.084
47DAP/reference	0.88693	0.043
52DAP/reference	0.94491	0.22
57DAP/reference	0.92618	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.85927	0.022
17DAP/reference	1.28291	0.405
27DAP/reference	2.48681	0.019
39DAP/reference	1.9917	0.012
41DAP/reference	1.90731	0.029
42DAP/reference	1.73322	0.029
43DAP/reference	1.69756	0.19
47DAP/reference	0.93482	0.278
52DAP/reference	2.03273	0.06
57DAP/reference	1.02438	0.43

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.178	0.966
26DAP/20DAP	0.90476	1
34DAP/26DAP	1.43016	0.819
51DAP/34DAP	1.20029	0.775
52DAP/51DAP	0.74691	1
53DAP/52DAP	0.80889	0.455
55DAP/53DAP	0.80614	0.181
57DAP/55DAP	1.20776	0.694
62DAP/57DAP	1.22236	0.006
68DAP/62DAP	1.34912	0.827
68DAP/14DAP	1.0413	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5657	0.782

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	0.61639
12-2/M82	N/A	N/A
12-4/M82	1.01274
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	N/A	N/A
IL2-6/WTpooled	1.38076	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05399	1
IL12-4/WTpooled	1.23966	0.531
IL1-4/WTpooled	0.86351
WT/WTpooled	0.94616	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	1.00758	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.82711	0.95
DC3000/delta hrp 12h	0.98083
DC3000/delta hrp 24h	2.16108	0.212

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.44622	0.094
DC3000 delta B/DC3000 delta AB	0.46906

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91687	0.328
Exp 36h	0.91783	0.82
Exp 60h	0.76396	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98751	1
Var 0h	1.10533	1
Var 12h I row2-row1	1.05639	0.736
Var 12h NI row2-row1	1.03459	1
Var 36h I row2-row1	0.92953	0.805
Var 36h NI row2-row1	0.93421	0.645
Var 60h I row2-row1	1.0432	0.562
Var 60h NI row2-row1	0.98544	1
Time course 0hI-0hNI	1.03622	0.852
Time course 12hI-12hNI	1.02698	1
Time course 36hI-36hNI	0.7039	0.025
Time course 60hI-60hNI	0.95389	0.646

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)	0.90913	0.314
transgenic ySAMdc/azygous control (breaker)	0.70992	0.139
transgenic ySAMdc/azygous control (red)	1.05181	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07614	0.059

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71531	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89976	1
Manapal/WT (break)	1.14773	1
Manapal/WT (red)	1.0747	1