Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.8341	0.037
27DAP/17DAP	1.31758	0.677
39DAP/27DAP	1.65387	0.026
41DAP/39DAP	0.77838	0.193
42DAP/41DAP	0.32006	0.259
43DAP/42DAP	0.6976	0.454
47DAP/43DAP	0.90556	0.68
52DAP/47DAP	1.06219	0.982
57DAP/52DAP	1.08298	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8983	0.05
17DAP/reference	1.15904	0.018
27DAP/reference	1.02326	0.735
39DAP/reference	1.08026	0.125
41DAP/reference	1.065	0.451
42DAP/reference	0.93312	0.018
43DAP/reference	0.98003	0.763
47DAP/reference	0.91602	0.065
52DAP/reference	0.88848	0.215
57DAP/reference	0.85452	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.408	0.179
27DAP/17DAP	2.00613	0.023
39DAP/27DAP	0.67886	0.066
41DAP/39DAP	0.86022	0.384
42DAP/41DAP	0.9131	0.436
43DAP/42DAP	0.41067	0.02
47DAP/43DAP	0.92218	0.75
52DAP/47DAP	1.30214	0.402
57DAP/52DAP	1.24235	0.679
57DAP/7DAP	0.83318	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81664	0.074
17DAP/reference	0.95325	0.253
27DAP/reference	1.35814	0.008
39DAP/reference	0.9873	0.552
41DAP/reference	1.25085	0.018
42DAP/reference	0.93602	0.262
43DAP/reference	1.04626	0.672
47DAP/reference	0.97057	0.671
52DAP/reference	0.84268	0.083
57DAP/reference	0.82536	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12368	0.106
17DAP/reference	1.11742	0.136
27DAP/reference	1.06582	0.471
39DAP/reference	1.05836	0.746
41DAP/reference	1.03426	0.766
42DAP/reference	0.92787	0.189
43DAP/reference	1.21411	0.109
47DAP/reference	0.97734	0.446
52DAP/reference	1.14038	0.01
57DAP/reference	1.21937	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83213	0.092
17DAP/reference	0.85316	0.073
27DAP/reference	1.20932	0.065
39DAP/reference	1.26062	0.029
41DAP/reference	1.17378	0.027
42DAP/reference	1.08886	0.612
43DAP/reference	0.77647	0.051
47DAP/reference	0.94309	0.383
52DAP/reference	0.99387	0.838
57DAP/reference	0.78987	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09391	0.966
26DAP/20DAP	0.96217	1
34DAP/26DAP	0.97998	0.97
51DAP/34DAP	2.05786	0.038
52DAP/51DAP	0.80728	1
53DAP/52DAP	1.41775	0.129
55DAP/53DAP	1.01821	0.908
57DAP/55DAP	1.04759	0.997
62DAP/57DAP	2.3655	0.678
68DAP/62DAP	0.87215	0.7
68DAP/14DAP	0.76804	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07453	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.55886	0.13
Mature Green Tomato/Ripe Tomato	10.5098	0.026
Immature Eggplant/Mature Eggplant	0.91865	0.407
Ripe Pepper/Ripe Tomato	3.16278	1
Mature Eggplant/Ripe Tomato	1.11498	1

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	0.83398	0.33
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	1.07853	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.123
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	0.80328	0.247
IL2-6/WTpooled	1.28919	0.409
IL7-5/WTpooled	0.94688	1
IL7-3/WTpooled	0.90924	1
IL12-4/WTpooled	0.95893	1
IL1-4/WTpooled	0.95869	0.699
WT/WTpooled	1.11725	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	1.38236	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04496	0.921
DC3000/delta hrp 6h	1.14149	1
DC3000/delta hrp 12h	0.6177	1
DC3000/delta hrp 24h	18.1479	0.023

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33246	0.055
DC3000 delta B/DC3000 delta AB	1.13606	0.42

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.37481	1
Exp 36h	0.76318	0.589
Exp 60h	0.9216	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.13344	1
Var 0h	1.00577	1
Var 12h I row2-row1	1.06187	0.692
Var 12h NI row2-row1	1.37345
Var 36h I row2-row1	0.92918	1
Var 36h NI row2-row1	0.87577
Var 60h I row2-row1	0.75997
Var 60h NI row2-row1	1.22305	0.175
Time course 0hI-0hNI	1.53849	0.719
Time course 12hI-12hNI	0.87024	0.398
Time course 36hI-36hNI	0.85967	0.26
Time course 60hI-60hNI	0.59426	0.007

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)	0.65153	0.286
transgenic ySAMdc/azygous control (breaker)	1.09718	0.178
transgenic ySAMdc/azygous control (red)	1.01653	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1122	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01565	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1546	1
Manapal/WT (break)	1.00346	1
Manapal/WT (red)	1.71822	0.222