Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.14.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95409	0.671
27DAP/17DAP	1.07358	0.88
39DAP/27DAP	0.85277	0.399
41DAP/39DAP	1.242	0.203
42DAP/41DAP	1.02904	1
43DAP/42DAP	0.94351	0.799
47DAP/43DAP	0.92409	0.729
52DAP/47DAP	1.09843	0.772
57DAP/52DAP	1.0001	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16157	0.052
17DAP/reference	1.01535	0.653
27DAP/reference	0.9741	0.525
39DAP/reference	1.0555	0.504
41DAP/reference	1.00682	0.963
42DAP/reference	1.0973	0.015
43DAP/reference	1.03335	0.569
47DAP/reference	1.14242	0.003
52DAP/reference	1.20693	0.032
57DAP/reference	1.05183	0.321

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03252	0.812
27DAP/17DAP	1.00343	1
39DAP/27DAP	1.01704	0.824
41DAP/39DAP	1.08983	0.727
42DAP/41DAP	0.93889	0.541
43DAP/42DAP	1.03263	0.413
47DAP/43DAP	0.98858	0.947
52DAP/47DAP	0.97166	0.886
57DAP/52DAP	0.98976	0.828
57DAP/7DAP	1.07679	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95832	0.402
17DAP/reference	0.9689	0.124
27DAP/reference	0.94817	0.031
39DAP/reference	0.97923	0.354
41DAP/reference	0.91662	0.018
42DAP/reference	0.92808	0.09
43DAP/reference	0.94346	0.086
47DAP/reference	1.0081	0.996
52DAP/reference	0.92087	0.115
57DAP/reference	0.9371	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16519	0.102
17DAP/reference	1.26403	0.058
27DAP/reference	1.14213	0.116
39DAP/reference	1.15664	0.22
41DAP/reference	1.17895	0.199
42DAP/reference	1.09649	0.351
43DAP/reference	1.15457	0.157
47DAP/reference	1.00798	1
52DAP/reference	1.14644	0.069
57DAP/reference	1.19769	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98635	0.566
17DAP/reference	1.01776	0.784
27DAP/reference	0.9622	0.319
39DAP/reference	0.98194	0.393
41DAP/reference	1.0018	1
42DAP/reference	0.99999	1
43DAP/reference	1.06425	0.412
47DAP/reference	1.01802	1
52DAP/reference	0.95245	0.529
57DAP/reference	1.08297	0.462

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00036	1
26DAP/20DAP	0.98386	1
34DAP/26DAP	1.03738	0.819
51DAP/34DAP	0.96103	0.64
52DAP/51DAP	1.01353	0.873
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.08398
57DAP/55DAP	1.08389	0.969
62DAP/57DAP	0.86774	0.28
68DAP/62DAP	0.85751	0.722
68DAP/14DAP	1.01615	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97372	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.3402	0.058
Mature Green Tomato/Ripe Tomato	1.13216	0.881
Immature Eggplant/Mature Eggplant	1.16228	0.379
Ripe Pepper/Ripe Tomato	0.51755	0.224
Mature Eggplant/Ripe Tomato	0.86786	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.87187	0.634
1-1-2/M82	0.92348	1
12-2/M82	0.99256	1
12-4/M82	0.93348	0.619
1-3/M82	1.04551	0.277
2-1-1/M82	1.03669	1
2-1/M82	1.36257	1
2-6/M82	0.94101	1
3-2/M82	1.02865	1
4-1-1/M82	1.00652	1
4-1/M82	0.83469	0.998
4-3-2/M82	1.03265	1
4-3/M82	0.93328	1
5-3/M82	1.03152	1
6-2/M82	1.02036	1
6-3/M82	0.98639	1
7-1/M82	0.99189	1
7-2/M82	0.94617	0.578
9-3-2/M82	0.96002	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.86094
IL1-4/WTpooled	0.91625	0.834
WT/WTpooled	1.08547	0.686

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	0.90661	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99011	1
DC3000/delta hrp 6h	0.96213	0.95
DC3000/delta hrp 12h	1.01955	1
DC3000/delta hrp 24h	0.99061	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.3157	0.333
DC3000 delta B/DC3000 delta AB	1.15238	0.353

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06495	1
Exp 36h	1.20304	1
Exp 60h	1.26984	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01243	1
Var 0h	1.09803	0.594
Var 12h I row2-row1	1.04208	0.58
Var 12h NI row2-row1	1.02465	1
Var 36h I row2-row1	0.96182	1
Var 36h NI row2-row1	0.9867	0.743
Var 60h I row2-row1	1.16072	1
Var 60h NI row2-row1	1.0861	0.904
Time course 0hI-0hNI	1.05074	0.833
Time course 12hI-12hNI	0.98611	0.931
Time course 36hI-36hNI	1.02473	0.453
Time course 60hI-60hNI	1.25606	0.017

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)	0.96354	0.529
transgenic ySAMdc/azygous control (breaker)	1.44045	0.172
transgenic ySAMdc/azygous control (red)	1.1231	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95771	0.065

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.29486	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7136	1
Manapal/WT (break)	1.07309	1
Manapal/WT (red)	0.86972	0.229