Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.11.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73377	0.195
27DAP/17DAP	1.20556	0.809
39DAP/27DAP	1.14658	0.899
41DAP/39DAP	0.81298	0.475
42DAP/41DAP	0.97548	1
43DAP/42DAP	0.88631	0.815
47DAP/43DAP	1.34585	0.49
52DAP/47DAP	0.77784	0.461
57DAP/52DAP	1.66716	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17559	0.252
17DAP/reference	1.0677	0.258
27DAP/reference	0.97486	0.623
39DAP/reference	1.0763	0.434
41DAP/reference	1.25833	0.026
42DAP/reference	0.90673	0.056
43DAP/reference	0.93794	0.316
47DAP/reference	0.92606	0.09
52DAP/reference	0.929	0.258
57DAP/reference	0.77105	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97697	0.732
27DAP/17DAP	0.97259	0.887
39DAP/27DAP	1.1078	0.611
41DAP/39DAP	1.10049	0.801
42DAP/41DAP	0.96864	0.751
43DAP/42DAP	1.21883	0.413
47DAP/43DAP	1.32282	0.325
52DAP/47DAP	0.70571	0.142
57DAP/52DAP	0.91497	0.356
57DAP/7DAP	1.51005	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93213	0.361
17DAP/reference	1.12833	0.07
27DAP/reference	1.18515	0.01
39DAP/reference	0.85582	0.095
41DAP/reference	0.9531	0.449
42DAP/reference	1.00993	0.828
43DAP/reference	1.3069	0.034
47DAP/reference	0.9123	0.293
52DAP/reference	1.16034	0.229
57DAP/reference	1.62864	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32366	0.05
17DAP/reference	1.28293	0.066
27DAP/reference	1.17544	0.217
39DAP/reference	1.12315	0.602
41DAP/reference	1.08288	0.599
42DAP/reference	1.15838	0.074
43DAP/reference	1.74669	0.016
47DAP/reference	1.34637	0.025
52DAP/reference	1.14632	0.057
57DAP/reference	1.3272	0.277

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96083	0.362
17DAP/reference	1.17738	0.273
27DAP/reference	1.30695	0.031
39DAP/reference	1.30132	0.015
41DAP/reference	1.05078	0.265
42DAP/reference	0.9136	0.445
43DAP/reference	0.7106	0.024
47DAP/reference	1.03137	0.901
52DAP/reference	1.02403	0.838
57DAP/reference	0.77391	0.105

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.34614	0.678
26DAP/20DAP	1.27843	0.421
34DAP/26DAP	0.93776	0.783
51DAP/34DAP	1.23021
52DAP/51DAP	1.29373	0.588
53DAP/52DAP	1.21472	0.753
55DAP/53DAP	1.19033	0.229
57DAP/55DAP	1.07696	0.927
62DAP/57DAP	1.11798	0.902
68DAP/62DAP	0.68938	0.144
68DAP/14DAP	0.61491	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2936	0.052

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	2.23522

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	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	1.30844	0.365
IL2-6/WTpooled	0.93786	1
IL7-5/WTpooled	1.14794
IL7-3/WTpooled	1.06226	1
IL12-4/WTpooled	0.88524	0.71
IL1-4/WTpooled	1.02157	1
WT/WTpooled	0.92602	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	1.16547	0.853

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	N/A	N/A
DC3000/delta hrp 12h	0.97373	1
DC3000/delta hrp 24h	1.81291	0.037

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	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	1.04782	1
Var 0h	0.58484	0.933
Var 12h I row2-row1	1.80219	0.406
Var 12h NI row2-row1	0.99387	1
Var 36h I row2-row1	0.97593	1
Var 36h NI row2-row1	0.69861	1
Var 60h I row2-row1	1.06449	0.543
Var 60h NI row2-row1	0.7363	1
Time course 0hI-0hNI	1.34872	0.262
Time course 12hI-12hNI	0.97942	0.882
Time course 36hI-36hNI	0.85783	0.102
Time course 60hI-60hNI	0.66574	0.026

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)	3.24538	0.431
transgenic ySAMdc/azygous control (breaker)	0.60268	0.49
transgenic ySAMdc/azygous control (red)	1.4861	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96948	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9707	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23826	0.307
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A