Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.17.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02445	0.876
27DAP/17DAP	1.20309	0.836
39DAP/27DAP	1.3355	0.972
41DAP/39DAP	1.20844	0.624
42DAP/41DAP	0.6051	0.774
43DAP/42DAP	1.13685	0.956
47DAP/43DAP	1.38363	0.334
52DAP/47DAP	0.95634	0.789
57DAP/52DAP	0.88594	0.779

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9639	0.476
17DAP/reference	0.95252	0.597
27DAP/reference	1.02922	1
39DAP/reference	1.11297	0.301
41DAP/reference	1.31858	0.034
42DAP/reference	1.41973	0.003
43DAP/reference	1.09149	0.34
47DAP/reference	1.57549	0.001
52DAP/reference	1.46505	0.008
57DAP/reference	1.29743	0.094

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22356	0.65
27DAP/17DAP	1.14452	0.399
39DAP/27DAP	1.31038	0.173
41DAP/39DAP	0.60651	0.013
42DAP/41DAP	1.07419	0.81
43DAP/42DAP	1.18439	0.212
47DAP/43DAP	0.84671	0.214
52DAP/47DAP	1.02452	0.986
57DAP/52DAP	0.99888	0.745
57DAP/7DAP	1.56674	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77587	0.1
17DAP/reference	0.78482	0.108
27DAP/reference	0.85796	0.018
39DAP/reference	1.18146	0.297
41DAP/reference	0.87663	0.284
42DAP/reference	0.78674	0.117
43DAP/reference	1.00754	0.665
47DAP/reference	1.11748	0.386
52DAP/reference	0.92203	0.332
57DAP/reference	0.91389	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83074	0.248
17DAP/reference	1.14378	0.874
27DAP/reference	0.96831	0.467
39DAP/reference	1.12678	0.489
41DAP/reference	1.26934	0.183
42DAP/reference	1.35144	0.009
43DAP/reference	1.34677	0.157
47DAP/reference	1.26947	0.025
52DAP/reference	1.11566	0.3
57DAP/reference	0.93305	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79964	0.057
17DAP/reference	1.01648	0.966
27DAP/reference	0.90319	0.218
39DAP/reference	1.02906	0.987
41DAP/reference	0.91795	0.331
42DAP/reference	1.11764	0.589
43DAP/reference	0.9773	0.523
47DAP/reference	1.1015	0.655
52DAP/reference	1.25074	0.499
57DAP/reference	1.43685	0.095

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88988	1
26DAP/20DAP	1.18063	0.834
34DAP/26DAP	0.94084	0.927
51DAP/34DAP	1.01295	0.96
52DAP/51DAP	1.2649	0.842
53DAP/52DAP	0.98983	0.824
55DAP/53DAP	1.03344	1
57DAP/55DAP	0.88085	0.596
62DAP/57DAP	1.04848	1
68DAP/62DAP	1.13345	0.864
68DAP/14DAP	1.3492	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.54944	0.14

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.81619	0.237
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.1493	0.224
Mature Eggplant/Ripe Tomato	0.21155	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14914	0.961
1-1-2/M82	0.9909	1
12-2/M82	1.00282	0.955
12-4/M82	1.33576	1
1-3/M82	1.23353
2-1-1/M82	1.7309	0.457
2-1/M82	0.51506
2-6/M82	1.13383
3-2/M82	1.74326	0.426
4-1-1/M82	1.53828	1
4-1/M82	0.53672	0.737
4-3-2/M82	1.27468
4-3/M82	0.81801	1
5-3/M82	1.64487	0.447
6-2/M82	0.82868
6-3/M82	N/A	N/A
7-1/M82	1.53665	1
7-2/M82	0.7992	0.881
9-3-2/M82	1.0056	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97891	1
IL2-6/WTpooled	1.26439	0.419
IL7-5/WTpooled	1.07091	0.75
IL7-3/WTpooled	1.45814	1
IL12-4/WTpooled	1.176	0.673
IL1-4/WTpooled	1.09753	1
WT/WTpooled	1.01743	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	1.30246	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91457	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.89519	1
DC3000/delta hrp 24h	1.01379	0.924

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.05114	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00421	1
Var 0h	1.29333	0.936
Var 12h I row2-row1	1.17875	0.222
Var 12h NI row2-row1	0.83516	0.494
Var 36h I row2-row1	1.0184	1
Var 36h NI row2-row1	0.91425	0.549
Var 60h I row2-row1	1.09235	0.347
Var 60h NI row2-row1	0.88572	0.329
Time course 0hI-0hNI	1.06964	0.764
Time course 12hI-12hNI	0.98954	0.984
Time course 36hI-36hNI	0.91286	0.22
Time course 60hI-60hNI	1.13941	0.359

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)	0.93142	0.567
transgenic ySAMdc/azygous control (breaker)	0.7252	0.173
transgenic ySAMdc/azygous control (red)	0.90748	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01564	1

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)	0.96567	1
Manapal/WT (red)	0.8722	0.607