Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.14.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96954	0.77
27DAP/17DAP	1.04832	0.92
39DAP/27DAP	0.86161	0.537
41DAP/39DAP	1.31531	0.511
42DAP/41DAP	1.05725	1
43DAP/42DAP	0.89063	0.495
47DAP/43DAP	1.04835	0.793
52DAP/47DAP	1.30834	0.463
57DAP/52DAP	1.08579	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04702	0.421
17DAP/reference	0.9965	0.957
27DAP/reference	1.0219	0.539
39DAP/reference	1.02408	0.445
41DAP/reference	1.03547	0.312
42DAP/reference	0.98703	0.44
43DAP/reference	0.98493	0.728
47DAP/reference	0.99655	0.674
52DAP/reference	1.05467	0.912
57DAP/reference	0.96694	0.294

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00814	0.947
27DAP/17DAP	1.02307	0.924
39DAP/27DAP	0.97079	0.556
41DAP/39DAP	1.05304	0.612
42DAP/41DAP	0.97987	0.774
43DAP/42DAP	0.98385	0.751
47DAP/43DAP	1.0073	0.957
52DAP/47DAP	0.95698	0.71
57DAP/52DAP	0.96526	0.608
57DAP/7DAP	0.99305	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7986	0.088
17DAP/reference	0.78173	0.012
27DAP/reference	0.73077	0.01
39DAP/reference	0.87858	0.056
41DAP/reference	0.8453	0.018
42DAP/reference	0.77231	0.012
43DAP/reference	0.81761	0.013
47DAP/reference	0.8612	0.128
52DAP/reference	0.7717	0.015
57DAP/reference	0.80537	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00912	0.832
17DAP/reference	1.02219	0.531
27DAP/reference	0.93835	0.139
39DAP/reference	0.94432	0.214
41DAP/reference	0.94595	0.322
42DAP/reference	1.01324	1
43DAP/reference	1.0352	0.633
47DAP/reference	1.00374	1
52DAP/reference	0.96826	0.302
57DAP/reference	1.03281	0.387

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87097	0.249
17DAP/reference	0.94744	0.426
27DAP/reference	0.81603	0.025
39DAP/reference	0.77814	0.028
41DAP/reference	0.8298	0.022
42DAP/reference	0.74346	0.049
43DAP/reference	0.7476	0.023
47DAP/reference	0.96051	0.357
52DAP/reference	0.78157	0.289
57DAP/reference	0.92695	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05523	0.966
26DAP/20DAP	1.01165	1
34DAP/26DAP	1.02325	1
51DAP/34DAP	0.94736	0.64
52DAP/51DAP	0.96169	1
53DAP/52DAP	1.06206	0.678
55DAP/53DAP	0.90742	0.462
57DAP/55DAP	1.06851	0.969
62DAP/57DAP	1.00506	1
68DAP/62DAP	0.92036	0.609
68DAP/14DAP	0.99584	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0164	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.51369	0.287
Mature Green Tomato/Ripe Tomato	1.07	0.752
Immature Eggplant/Mature Eggplant	1.15112	0.222
Ripe Pepper/Ripe Tomato	2.1312
Mature Eggplant/Ripe Tomato	13.9613

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97605	0.944
1-1-2/M82	0.87263	1
12-2/M82	0.94139	0.955
12-4/M82	0.89114	1
1-3/M82	0.9162	0.501
2-1-1/M82	1.20987	0.689
2-1/M82	1.42267	1
2-6/M82	0.96563	1
3-2/M82	0.99107	1
4-1-1/M82	1.06427	1
4-1/M82	0.90786	0.665
4-3-2/M82	0.69971	0.487
4-3/M82	1.00672	1
5-3/M82	0.99198	1
6-2/M82	0.99445	1
6-3/M82	1.02567	1
7-1/M82	1.05327	1
7-2/M82	0.95231	0.599
9-3-2/M82	0.95767	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.00743	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93152	1
IL12-4/WTpooled	1.0685	0.839
IL1-4/WTpooled	0.81442
WT/WTpooled	0.96326	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	1.21497	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97435	1
DC3000/delta hrp 6h	1.31157	1
DC3000/delta hrp 12h	1.00198	1
DC3000/delta hrp 24h	1.02242	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29372	0.047
DC3000 delta B/DC3000 delta AB	1.14167	0.269

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01208	1
Exp 36h	1.91035	0.349
Exp 60h	1.69126	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96339	1
Var 0h	1.19448	0.782
Var 12h I row2-row1	1.1506	0.193
Var 12h NI row2-row1	0.98133	0.906
Var 36h I row2-row1	1.11632	1
Var 36h NI row2-row1	0.93789	0.743
Var 60h I row2-row1	1.00792	1
Var 60h NI row2-row1	1.08211	0.904
Time course 0hI-0hNI	1.10129	0.662
Time course 12hI-12hNI	1.03927	0.786
Time course 36hI-36hNI	1.13128	0.013
Time course 60hI-60hNI	1.97762	0.008

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)	0.94899	0.662
transgenic ySAMdc/azygous control (breaker)	1.38276	1
transgenic ySAMdc/azygous control (red)	1.46275	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02397	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30391	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88096	1
Manapal/WT (break)	0.53648	0.333
Manapal/WT (red)	0.5223	0.181