Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.2.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14605	0.394
27DAP/17DAP	0.88132	0.725
39DAP/27DAP	0.77642	0.392
41DAP/39DAP	1.3421	0.545
42DAP/41DAP	1.03567	1
43DAP/42DAP	1.27185	0.772
47DAP/43DAP	1.04644	0.949
52DAP/47DAP	1.14536	0.758
57DAP/52DAP	1.03633	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00308	1
17DAP/reference	1.07469	0.029
27DAP/reference	1.00501	0.996
39DAP/reference	0.98345	0.68
41DAP/reference	0.96656	0.341
42DAP/reference	0.87478	0.004
43DAP/reference	1.00072	0.942
47DAP/reference	0.92132	0.035
52DAP/reference	0.80248	0.053
57DAP/reference	0.87137	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00304	1
27DAP/17DAP	0.9418	0.363
39DAP/27DAP	0.9492	0.426
41DAP/39DAP	0.97811	0.973
42DAP/41DAP	1.01269	1
43DAP/42DAP	0.9791	0.665
47DAP/43DAP	0.97346	0.774
52DAP/47DAP	0.94514	0.591
57DAP/52DAP	0.96231	0.566
57DAP/7DAP	0.91256	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8992	0.078
17DAP/reference	0.94202	0.094
27DAP/reference	0.88254	0.035
39DAP/reference	0.99195	0.552
41DAP/reference	0.97456	0.284
42DAP/reference	0.97216	0.415
43DAP/reference	0.91856	0.139
47DAP/reference	0.88083	0.057
52DAP/reference	0.99167	0.621
57DAP/reference	0.9472	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06036	0.304
17DAP/reference	1.1137	0.058
27DAP/reference	1.02415	0.875
39DAP/reference	0.91736	0.257
41DAP/reference	0.90194	0.04
42DAP/reference	0.92852	0.237
43DAP/reference	0.86094	0.277
47DAP/reference	0.98712	0.574
52DAP/reference	0.97181	0.351
57DAP/reference	0.94312	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95352	0.268
17DAP/reference	0.97684	0.537
27DAP/reference	0.97227	0.206
39DAP/reference	0.93698	0.111
41DAP/reference	0.96681	0.417
42DAP/reference	0.76975	0.059
43DAP/reference	0.81716	0.048
47DAP/reference	0.91359	0.286
52DAP/reference	0.90301	0.368
57DAP/reference	1.13971	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03643	0.966
26DAP/20DAP	1.02616	1
34DAP/26DAP	0.89325	0.712
51DAP/34DAP	0.89156	0.225
52DAP/51DAP	0.91832	0.151
53DAP/52DAP	1.02162	0.91
55DAP/53DAP	0.87216	0.218
57DAP/55DAP	1.07102	0.805
62DAP/57DAP	1.02054	1
68DAP/62DAP	0.89414	0.7
68DAP/14DAP	1.06789	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82574	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.53451	0.363
Immature Eggplant/Mature Eggplant	0.96278	1
Ripe Pepper/Ripe Tomato	1.26325	1
Mature Eggplant/Ripe Tomato	0.78887

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10761	1
1-1-2/M82	0.72987	1
12-2/M82	1.17521	1
12-4/M82	0.89478	1
1-3/M82	0.89915	0.378
2-1-1/M82	1.14613
2-1/M82	N/A	N/A
2-6/M82	1.02007	1
3-2/M82	0.96012	1
4-1-1/M82	0.97126	1
4-1/M82	0.86192	1
4-3-2/M82	0.91494	1
4-3/M82	0.95085	1
5-3/M82	1.03913	0.572
6-2/M82	1.02401
6-3/M82	N/A	N/A
7-1/M82	1.02511	1
7-2/M82	0.93775	1
9-3-2/M82	0.95994	0.449

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	3.29
IL7-3/WTpooled	0.85589	1
IL12-4/WTpooled	0.75148	0.566
IL1-4/WTpooled	0.92096	1
WT/WTpooled	0.8749	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	0.86565	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99577	1
DC3000/delta hrp 6h	0.87182	0.95
DC3000/delta hrp 12h	0.98228	1
DC3000/delta hrp 24h	1.02435	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03322	0.25
DC3000 delta B/DC3000 delta AB	0.90057	0.195

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90619	1
Exp 36h	0.77656	0.661
Exp 60h	0.80321	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03292	1
Var 0h	0.70526	0.457
Var 12h I row2-row1	1.02322	1
Var 12h NI row2-row1	1.0989	1
Var 36h I row2-row1	1.33395	1
Var 36h NI row2-row1	1.10099	1
Var 60h I row2-row1	1.69657	1
Var 60h NI row2-row1	1.22162	0.904
Time course 0hI-0hNI	0.90411	0.256
Time course 12hI-12hNI	0.82692	0.05
Time course 36hI-36hNI	0.8578	0.15
Time course 60hI-60hNI	0.29413	0.005

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)	1.02704	0.798
transgenic ySAMdc/azygous control (breaker)	0.97219	0.49
transgenic ySAMdc/azygous control (red)	1.17823	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00013	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.75514	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.41071	0.14
Manapal/WT (break)	0.91772	1
Manapal/WT (red)	1.17149	0.413