Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12253	0.932
27DAP/17DAP	1.01792	1
39DAP/27DAP	0.8183	0.449
41DAP/39DAP	0.98253	0.849
42DAP/41DAP	1.21281	0.619
43DAP/42DAP	0.83847	0.712
47DAP/43DAP	0.8632	0.565
52DAP/47DAP	0.82545	0.545
57DAP/52DAP	1.32831	0.944

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18608	0.097
17DAP/reference	0.97731	0.567
27DAP/reference	0.94943	0.304
39DAP/reference	0.96375	0.554
41DAP/reference	0.99604	1
42DAP/reference	1.15804	0.005
43DAP/reference	1.0796	0.217
47DAP/reference	0.97917	0.418
52DAP/reference	0.94861	0.215
57DAP/reference	0.83689	0.026

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08697	0.841
27DAP/17DAP	1.18165	0.78
39DAP/27DAP	0.92234	0.812
41DAP/39DAP	0.89857	0.793
42DAP/41DAP	1.13542	0.991
43DAP/42DAP	1.02125	1
47DAP/43DAP	1.12833	0.897
52DAP/47DAP	1.18029	0.785
57DAP/52DAP	1.17652	0.997
57DAP/7DAP	0.64804	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84575	0.168
17DAP/reference	1.22396	0.328
27DAP/reference	1.04269	0.301
39DAP/reference	1.23307	0.333
41DAP/reference	1.31163	0.303
42DAP/reference	1.02006	1
43DAP/reference	1.10621	0.364
47DAP/reference	1.1771	0.311
52DAP/reference	1.19036	0.212
57DAP/reference	1.35652	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12193	0.269
17DAP/reference	1.19305	0.043
27DAP/reference	1.24708	0.16
39DAP/reference	1.23928	0.035
41DAP/reference	1.15045	0.439
42DAP/reference	1.12464	0.509
43DAP/reference	1.12993	0.735
47DAP/reference	0.98557	0.574
52DAP/reference	1.20565	0.012
57DAP/reference	1.48359	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0949	0.809
17DAP/reference	0.92349	0.508
27DAP/reference	0.91211	0.27
39DAP/reference	1.119	0.365
41DAP/reference	1.17599	0.605
42DAP/reference	1.32724	0.117
43DAP/reference	1.30666	0.139
47DAP/reference	0.98848	0.593
52DAP/reference	1.13712	0.631
57DAP/reference	0.77409	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.25195	0.786
26DAP/20DAP	0.96957	1
34DAP/26DAP	0.84074	0.539
51DAP/34DAP	0.65838	0.442
52DAP/51DAP	1.26314	0.542
53DAP/52DAP	0.83093	0.562
55DAP/53DAP	1.35359	0.911
57DAP/55DAP	1.12703	0.927
62DAP/57DAP	1.37502	0.515
68DAP/62DAP	0.63412	0.177
68DAP/14DAP	1.00167	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.51722	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.53486	0.059
Mature Green Tomato/Ripe Tomato	0.89409	0.079
Immature Eggplant/Mature Eggplant	0.6985	0.075
Ripe Pepper/Ripe Tomato	0.67657	0.293
Mature Eggplant/Ripe Tomato	1.07179	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15882	0.432
1-1-2/M82	0.87065
12-2/M82	1.26454	1
12-4/M82	1.0724	1
1-3/M82	1.14637	0.26
2-1-1/M82	0.93061
2-1/M82	N/A	N/A
2-6/M82	0.94284
3-2/M82	1.54086
4-1-1/M82	1.15205	0.977
4-1/M82	1.00205	1
4-3-2/M82	0.73832	0.698
4-3/M82	N/A	N/A
5-3/M82	0.96861	1
6-2/M82	0.91698
6-3/M82	0.96064
7-1/M82	0.96808
7-2/M82	0.88027	0.57
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.2912	0.277
IL2-6/WTpooled	0.57026	0.383
IL7-5/WTpooled	0.96381	1
IL7-3/WTpooled	1.51497	1
IL12-4/WTpooled	1.17894	0.891
IL1-4/WTpooled	1.35498	0.426
WT/WTpooled	1.08701	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95135	1
DC3000/delta hrp 6h	1.09469	1
DC3000/delta hrp 12h	1.06584	1
DC3000/delta hrp 24h	1.04981	0.673

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	1.00621	1
Exp 36h	0.90773	0.699
Exp 60h	0.72123	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98326	1
Var 0h	0.86449	0.261
Var 12h I row2-row1	0.92012	0.338
Var 12h NI row2-row1	0.97199	0.906
Var 36h I row2-row1	0.83826	1
Var 36h NI row2-row1	0.9531	0.791
Var 60h I row2-row1	0.9553	1
Var 60h NI row2-row1	1.9417	0.904
Time course 0hI-0hNI	1.17984	0.867
Time course 12hI-12hNI	0.98561	0.95
Time course 36hI-36hNI	0.8045	0.08
Time course 60hI-60hNI	0.63489	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)	1.04729	0.798
transgenic ySAMdc/azygous control (breaker)	0.63418	0.134
transgenic ySAMdc/azygous control (red)	0.96099	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99665	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.56352	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90043	1
Manapal/WT (break)	0.92576	1
Manapal/WT (red)	1.04423	1