Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.20.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01747	0.876
27DAP/17DAP	1.08933	0.873
39DAP/27DAP	0.83288	0.594
41DAP/39DAP	1.193	0.96
42DAP/41DAP	0.81662	1
43DAP/42DAP	0.90076	0.813
47DAP/43DAP	1.59628	0.412
52DAP/47DAP	1.16735	0.943
57DAP/52DAP	0.76535	0.768

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82994	0.046
17DAP/reference	1.03984	0.653
27DAP/reference	0.95105	0.457
39DAP/reference	1.06938	0.654
41DAP/reference	0.93899	0.267
42DAP/reference	0.88287	0.004
43DAP/reference	1.06746	0.425
47DAP/reference	1.06739	0.541
52DAP/reference	0.84393	0.158
57DAP/reference	1.03718	0.643

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.38142	0.581
27DAP/17DAP	1.06394	0.969
39DAP/27DAP	1.16591	0.496
41DAP/39DAP	1.22206	0.579
42DAP/41DAP	0.80904	0.173
43DAP/42DAP	1.23352	0.513
47DAP/43DAP	0.96485	0.896
52DAP/47DAP	1.12098	1
57DAP/52DAP	1.25768	0.722
57DAP/7DAP	1.06952	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93604	0.27
17DAP/reference	1.01969	0.627
27DAP/reference	0.92025	0.125
39DAP/reference	0.96879	0.307
41DAP/reference	1.012	0.848
42DAP/reference	1.01246	1
43DAP/reference	1.08256	0.637
47DAP/reference	0.95655	0.504
52DAP/reference	1.02621	0.941
57DAP/reference	1.03335	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02034	0.812
17DAP/reference	0.86162	0.066
27DAP/reference	0.74763	0.049
39DAP/reference	0.81751	0.091
41DAP/reference	0.88232	0.152
42DAP/reference	0.81341	0.098
43DAP/reference	0.89124	0.217
47DAP/reference	0.87969	0.11
52DAP/reference	0.95468	0.38
57DAP/reference	0.87189	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85665	0.068
17DAP/reference	0.95221	0.342
27DAP/reference	0.92787	0.092
39DAP/reference	0.81821	0.008
41DAP/reference	0.96201	0.371
42DAP/reference	0.92433	0.087
43DAP/reference	0.93849	0.348
47DAP/reference	0.95429	0.348
52DAP/reference	0.94151	0.472
57DAP/reference	0.94492	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32478	0.966
26DAP/20DAP	1.56592	0.524
34DAP/26DAP	1.63926	0.819
51DAP/34DAP	1.79846	0.775
52DAP/51DAP	1.28651	0.821
53DAP/52DAP	1.03173	0.944
55DAP/53DAP	1.01278	0.886
57DAP/55DAP	1.55204	0.927
62DAP/57DAP	1.16351	0.622
68DAP/62DAP	1.23962	0.858
68DAP/14DAP	0.94742	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90908	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	3.66875	0.05
Ripe Pepper/Ripe Tomato	0.56125	0.293
Mature Eggplant/Ripe Tomato	0.54305	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12086	0.591
1-1-2/M82	0.91641	1
12-2/M82	0.89576	0.955
12-4/M82	0.81027	0.358
1-3/M82	0.80825	0.378
2-1-1/M82	1.15612	0.764
2-1/M82	N/A	N/A
2-6/M82	1.00966	1
3-2/M82	1.11962	N/A
4-1-1/M82	1.09238	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.90561	N/A
5-3/M82	0.87903	0.642
6-2/M82	1.23004	1
6-3/M82	1.0166	1
7-1/M82	N/A	N/A
7-2/M82	0.91544	0.881
9-3-2/M82	N/A	N/A

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	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.25796	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00722	1
DC3000/delta hrp 6h	0.66062	N/A
DC3000/delta hrp 12h	1.15014	1
DC3000/delta hrp 24h	1.08395	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02686	1
Exp 36h	2.08685	1
Exp 60h	1.58075	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	2.50043	0.613
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.52871	0.645
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.97591	1
Time course 0hI-0hNI	1.67414	0.662
Time course 12hI-12hNI	1.0792	1
Time course 36hI-36hNI	1.41905	1
Time course 60hI-60hNI	1.55242	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)	1.0687	0.748
transgenic ySAMdc/azygous control (breaker)	0.69457	0.15
transgenic ySAMdc/azygous control (red)	0.94092	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00187	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8111	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13427	0.086
Manapal/WT (break)	0.93971	1
Manapal/WT (red)	0.94495	0.728