Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.13.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43496	0.219
27DAP/17DAP	0.93225	0.819
39DAP/27DAP	0.73063	0.312
41DAP/39DAP	0.82882	0.512
42DAP/41DAP	1.13325	1
43DAP/42DAP	0.8577	0.705
47DAP/43DAP	1.52591	0.502
52DAP/47DAP	1.04652	0.989
57DAP/52DAP	1.06818	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84975	0.027
17DAP/reference	0.95785	0.536
27DAP/reference	0.85876	0.141
39DAP/reference	0.93455	0.298
41DAP/reference	0.9501	0.201
42DAP/reference	1.49935	0.002
43DAP/reference	0.90787	0.051
47DAP/reference	1.13232	1
52DAP/reference	0.78012	0.016
57DAP/reference	0.91225	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05421	0.847
27DAP/17DAP	1.04501	0.924
39DAP/27DAP	1.04114	1
41DAP/39DAP	0.80255	0.599
42DAP/41DAP	0.97011	0.762
43DAP/42DAP	1.22953
47DAP/43DAP	1.13453	0.941
52DAP/47DAP	1.28155	0.458
57DAP/52DAP	1.06792	0.907
57DAP/7DAP	1.85596	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.64064	0.042
17DAP/reference	1.51495	0.01
27DAP/reference	2.20624	0.006
39DAP/reference	1.73606	0.016
41DAP/reference	2.00445	0.013
42DAP/reference	2.45916	0.013
43DAP/reference	2.44709	0.007
47DAP/reference	2.59584	0.027
52DAP/reference	14.922	0.007
57DAP/reference	7.64341	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96885	0.592
17DAP/reference	1.06995	0.508
27DAP/reference	1.02666	0.735
39DAP/reference	1.04478	0.956
41DAP/reference	0.86822	0.237
42DAP/reference	1.14699	0.969
43DAP/reference	0.87225	0.263
47DAP/reference	0.987	0.574
52DAP/reference	1.11609	0.124
57DAP/reference	1.01186	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	4.60945	0.018
17DAP/reference	0.9099	0.364
27DAP/reference	1.34695	0.018
39DAP/reference	5.77186	0.017
41DAP/reference	3.74837	0.01
42DAP/reference	2.26738	0.008
43DAP/reference	1.83305	0.039
47DAP/reference	1.28658	0.017
52DAP/reference	2.60516	0.031
57DAP/reference	1.82392	0.223

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11751	0.966
26DAP/20DAP	0.76818
34DAP/26DAP	0.68553	0.067
51DAP/34DAP	1.36983	0.692
52DAP/51DAP	1.16764	0.792
53DAP/52DAP	0.98097	0.96
55DAP/53DAP	1.1623	0.885
57DAP/55DAP	1.22032	0.543
62DAP/57DAP	0.97207	0.994
68DAP/62DAP	0.9573	0.787
68DAP/14DAP	0.7949	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61394

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	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.9386
1-3/M82	0.60644
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.05322	1
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	1.3273
5-3/M82	0.8974	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.93956
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	1.00166	1
IL2-6/WTpooled	1.17244	0.531
IL7-5/WTpooled	0.96334	1
IL7-3/WTpooled	0.85841	0.294
IL12-4/WTpooled	1.03255	0.695
IL1-4/WTpooled	0.97749	1
WT/WTpooled	1.02321	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	1.28689	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.088	0.921
DC3000/delta hrp 6h	3.30446	1
DC3000/delta hrp 12h	1.27943	1
DC3000/delta hrp 24h	1.06332	0.797

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	0.3068

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	1.09962
Var 0h	0.56004	0.244
Var 12h I row2-row1	1.0809
Var 12h NI row2-row1	0.85893
Var 36h I row2-row1	0.88194
Var 36h NI row2-row1	0.76246
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.69259	1
Time course 0hI-0hNI	0.89229	0.781
Time course 12hI-12hNI	1.0888
Time course 36hI-36hNI	0.75027
Time course 60hI-60hNI	0.68463	0.006

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)	0.96689	0.567
transgenic ySAMdc/azygous control (breaker)	0.9722	1
transgenic ySAMdc/azygous control (red)	0.88781	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05873	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98231	0.789

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)	0.7945	1
Manapal/WT (red)	1.20793	1