Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02194	0.964
27DAP/17DAP	1.08908	0.859
39DAP/27DAP	0.88763	0.512
41DAP/39DAP	1.35228	0.225
42DAP/41DAP	1.012	1
43DAP/42DAP	0.99212	0.937
47DAP/43DAP	0.90873	0.705
52DAP/47DAP	0.88982	0.683
57DAP/52DAP	1.00137	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95221	0.284
17DAP/reference	0.97137	0.448
27DAP/reference	0.95788	0.163
39DAP/reference	0.94423	0.247
41DAP/reference	0.94168	0.201
42DAP/reference	0.92373	0.091
43DAP/reference	1.0013	1
47DAP/reference	0.98376	0.418
52DAP/reference	0.86141	0.111
57DAP/reference	0.97679	0.553

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94122	0.47
27DAP/17DAP	1.03316	0.909
39DAP/27DAP	0.99123	0.997
41DAP/39DAP	0.94588	0.875
42DAP/41DAP	1.03908	0.763
43DAP/42DAP	1.02967	0.446
47DAP/43DAP	0.96596	0.666
52DAP/47DAP	1.02159	0.933
57DAP/52DAP	1.00492	1
57DAP/7DAP	0.99958	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89423	0.062
17DAP/reference	0.96575	0.094
27DAP/reference	0.98733	0.303
39DAP/reference	0.95271	0.034
41DAP/reference	0.93135	0.05
42DAP/reference	0.92221	0.037
43DAP/reference	0.92461	0.027
47DAP/reference	0.88273	0.128
52DAP/reference	0.92459	0.15
57DAP/reference	0.90902	0.03

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97411	0.607
17DAP/reference	0.92501	0.036
27DAP/reference	0.9049	0.064
39DAP/reference	0.88731	0.06
41DAP/reference	0.88449	0.098
42DAP/reference	1.00647	1
43DAP/reference	1.0601	0.673
47DAP/reference	0.95774	0.149
52DAP/reference	0.92354	0.015
57DAP/reference	0.99427	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93757	0.158
17DAP/reference	0.96075	0.292
27DAP/reference	0.96113	0.184
39DAP/reference	0.9591	0.092
41DAP/reference	0.97191	0.371
42DAP/reference	0.95339	0.287
43DAP/reference	0.90555	0.039
47DAP/reference	0.93465	0.168
52DAP/reference	0.89913	0.184
57DAP/reference	0.86462	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99762	1
26DAP/20DAP	0.90577	0.512
34DAP/26DAP	1.01036	1
51DAP/34DAP	0.99664	0.946
52DAP/51DAP	1.0536	0.396
53DAP/52DAP	1.00455	0.961
55DAP/53DAP	1.04328	0.764
57DAP/55DAP	0.97786	0.875
62DAP/57DAP	0.9739	0.994
68DAP/62DAP	1.03188	0.845
68DAP/14DAP	1.08988	0.17

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94065	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94971	0.692
Mature Green Tomato/Ripe Tomato	0.77349	0.148
Immature Eggplant/Mature Eggplant	1.66878	0.123
Ripe Pepper/Ripe Tomato	0.98604	1
Mature Eggplant/Ripe Tomato	1.07998	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03382	1
1-1-2/M82	0.9061	1
12-2/M82	0.92314	0.955
12-4/M82	0.92287	0.619
1-3/M82	1.04028	0.479
2-1-1/M82	0.97416	1
2-1/M82	1.27026	1
2-6/M82	0.95956	1
3-2/M82	0.89818	1
4-1-1/M82	1.02832	1
4-1/M82	0.93052	0.867
4-3-2/M82	0.99366	1
4-3/M82	0.99937	1
5-3/M82	1.02148	1
6-2/M82	1.02722	1
6-3/M82	0.99895	1
7-1/M82	1.01904	1
7-2/M82	0.9401	0.599
9-3-2/M82	0.82273	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8499
IL2-6/WTpooled	1.33056	0.456
IL7-5/WTpooled	1.05376	0.792
IL7-3/WTpooled	0.83552	0.418
IL12-4/WTpooled	1.03241	1
IL1-4/WTpooled	0.89703	0.699
WT/WTpooled	1.01442	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	0.93964	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01635	0.921
DC3000/delta hrp 6h	1.21801	1
DC3000/delta hrp 12h	0.93761	1
DC3000/delta hrp 24h	1.09163	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04535	0.476
DC3000 delta B/DC3000 delta AB	1.11325	0.327

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	0.97821	1
Var 0h	1.68783	0.98
Var 12h I row2-row1	1.11382	0.211
Var 12h NI row2-row1	1.01807	1
Var 36h I row2-row1	0.93126	1
Var 36h NI row2-row1	1.19077	1
Var 60h I row2-row1	1.35271	0.562
Var 60h NI row2-row1	1.03113	1
Time course 0hI-0hNI	1.04585	0.867
Time course 12hI-12hNI	1.00403	1
Time course 36hI-36hNI	0.95679	0.373
Time course 60hI-60hNI	1.03365	0.575

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)	0.9131	0.246
transgenic ySAMdc/azygous control (breaker)	0.76734	0.142
transgenic ySAMdc/azygous control (red)	1.13053	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99931	0.94

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93639	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11105	1
Manapal/WT (break)	1.05657	0.183
Manapal/WT (red)	1.11277	0.164