Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1598	0.646
27DAP/17DAP	0.82421	0.542
39DAP/27DAP	1.23072	0.655
41DAP/39DAP	1.29592	0.293
42DAP/41DAP	1.2943	0.626
43DAP/42DAP	1.84235	0.091
47DAP/43DAP	2.19868	0.156
52DAP/47DAP	1.37383	0.43
57DAP/52DAP	1.12055	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92863	0.362
17DAP/reference	0.87274	0.097
27DAP/reference	1.03156	0.75
39DAP/reference	1.34167	0.068
41DAP/reference	1.38516	0.017
42DAP/reference	1.92594	0.001
43DAP/reference	1.46466	0.042
47DAP/reference	3.2267	0.001
52DAP/reference	2.54761	0.01
57DAP/reference	1.53017	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3401	0.144
27DAP/17DAP	1.16477	0.5
39DAP/27DAP	1.37982	0.171
41DAP/39DAP	0.45027	0.013
42DAP/41DAP	3.52489	0.001
43DAP/42DAP	3.3258	0.013
47DAP/43DAP	0.96729	0.861
52DAP/47DAP	1.32909	0.46
57DAP/52DAP	1.04919	1
57DAP/7DAP	1.16078	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87769	0.203
17DAP/reference	1.08834	0.123
27DAP/reference	1.12318	0.035
39DAP/reference	1.3175	0.01
41DAP/reference	1.21639	0.109
42DAP/reference	1.2179	0.021
43DAP/reference	1.25343	0.074
47DAP/reference	1.34778	0.045
52DAP/reference	1.1039	0.328
57DAP/reference	0.80614	0.054

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81966	0.14
17DAP/reference	1.11012	0.979
27DAP/reference	1.30712	0.09
39DAP/reference	1.80262	0.023
41DAP/reference	1.28575	0.053
42DAP/reference	1.4453	0.029
43DAP/reference	1.31981	0.356
47DAP/reference	1.37414	0.041
52DAP/reference	1.23961	0.065
57DAP/reference	1.51962	0.049

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89747	0.158
17DAP/reference	0.90544	0.281
27DAP/reference	0.91715	0.092
39DAP/reference	0.93864	0.246
41DAP/reference	1.11521	0.692
42DAP/reference	1.71826	0.011
43DAP/reference	1.63814	0.019
47DAP/reference	2.16687	0.005
52DAP/reference	1.59304	0.056
57DAP/reference	1.6938	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27611	0.916
26DAP/20DAP	1.1282	1
34DAP/26DAP	1.19519	1
51DAP/34DAP	1.31724	0.637
52DAP/51DAP	2.12691	0.039
53DAP/52DAP	0.99878	1
55DAP/53DAP	1.29308	0.04
57DAP/55DAP	0.57536	0.066
62DAP/57DAP	0.33483	0.002
68DAP/62DAP	1.19109	0.573
68DAP/14DAP	2.13064	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05062	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9997	0.863
Mature Green Tomato/Ripe Tomato	0.12496	0.016
Immature Eggplant/Mature Eggplant	1.99118	0.05
Ripe Pepper/Ripe Tomato	0.11976	0.224
Mature Eggplant/Ripe Tomato	0.12934	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02504	1
1-1-2/M82	1.45827	1
12-2/M82	1.60423	1
12-4/M82	1.02361	1
1-3/M82	0.65666	0.501
2-1-1/M82	0.82614	0.465
2-1/M82	0.86336	0.74
2-6/M82	0.93771	1
3-2/M82	0.06656	0.414
4-1-1/M82	0.72506	0.792
4-1/M82	0.90659
4-3-2/M82	0.92016	0.487
4-3/M82	0.92372	1
5-3/M82	0.75862	0.642
6-2/M82	1.05943	1
6-3/M82	0.9031	1
7-1/M82	0.97881	0.803
7-2/M82	1.01944	1
9-3-2/M82	1.38946	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87229
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.69732
IL7-3/WTpooled	1.17518	1
IL12-4/WTpooled	1.01814	1
IL1-4/WTpooled	0.83483	0.834
WT/WTpooled	0.8173	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	1.29007	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.099	0.774
DC3000/delta hrp 6h	1.08232	1
DC3000/delta hrp 12h	1.16392	1
DC3000/delta hrp 24h	0.93134	0.412

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.21343	0.25
DC3000 delta B/DC3000 delta AB	1.20354	0.288

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00126	1
Exp 36h	0.87467	0.471
Exp 60h	1.1088	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9758	1
Var 0h	0.84129	0.933
Var 12h I row2-row1	0.9531	0.856
Var 12h NI row2-row1	1.02344	1
Var 36h I row2-row1	1.06439	1
Var 36h NI row2-row1	1.32749	1
Var 60h I row2-row1	0.75503	0.285
Var 60h NI row2-row1	1.09353	1
Time course 0hI-0hNI	0.96409	0.808
Time course 12hI-12hNI	0.94553	0.705
Time course 36hI-36hNI	0.83703	0.023
Time course 60hI-60hNI	0.62506	0.006

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)	1.4268	0.261
transgenic ySAMdc/azygous control (breaker)	0.693	0.142
transgenic ySAMdc/azygous control (red)	0.83123	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93392	0.062

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.25434	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.49944	0.172
Manapal/WT (break)	0.94554	1
Manapal/WT (red)	0.79457	0.188