Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.4.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64166	0.098
27DAP/17DAP	1.10691	0.872
39DAP/27DAP	1.38661	0.35
41DAP/39DAP	0.89571	0.533
42DAP/41DAP	1.01775	1
43DAP/42DAP	0.9462	0.877
47DAP/43DAP	1.14696	0.702
52DAP/47DAP	0.99562	0.842
57DAP/52DAP	1.40588	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8682	0.205
17DAP/reference	0.65125	0.008
27DAP/reference	0.91247	0.339
39DAP/reference	0.68104	0.018
41DAP/reference	0.55096	0.009
42DAP/reference	0.91996	0.139
43DAP/reference	0.91813	0.129
47DAP/reference	1.00638	0.568
52DAP/reference	1.3295	0.195
57DAP/reference	1.54021	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5928
27DAP/17DAP	0.94721	0.887
39DAP/27DAP	N/A	N/A
41DAP/39DAP	0.96887
42DAP/41DAP	1.41318	0.47
43DAP/42DAP	1.40671
47DAP/43DAP	N/A	N/A
52DAP/47DAP	1.22681	0.742
57DAP/52DAP	1.19664	0.858
57DAP/7DAP	1.1088

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40206	0.055
17DAP/reference	1.22739	0.014
27DAP/reference	1.02598	0.698
39DAP/reference	1.36379	0.028
41DAP/reference	1.14347	0.207
42DAP/reference	1.17951	0.233
43DAP/reference	1.21362	0.226
47DAP/reference	1.04653	0.885
52DAP/reference	1.18791	0.018
57DAP/reference	1.17528	0.04

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89974	0.426
17DAP/reference	0.65346	0.006
27DAP/reference	0.87871	0.24
39DAP/reference	1.13026	0.824
41DAP/reference	0.95038	0.432
42DAP/reference	1.0932	0.369
43DAP/reference	0.84915	0.217
47DAP/reference	0.81887	0.033
52DAP/reference	0.90285	0.131
57DAP/reference	0.67298	0.028

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8128	0.049
17DAP/reference	0.8674	0.268
27DAP/reference	0.95573	0.465
39DAP/reference	1.18537	0.157
41DAP/reference	1.1361	0.265
42DAP/reference	1.13458	0.789
43DAP/reference	1.16296	0.59
47DAP/reference	0.84911	0.168
52DAP/reference	0.94091	0.482
57DAP/reference	2.58563	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96568	1
26DAP/20DAP	2.05985
34DAP/26DAP	2.79395	0.819
51DAP/34DAP	0.68964	0.376
52DAP/51DAP	2.23149	0.651
53DAP/52DAP	1.85312	0.594
55DAP/53DAP	1.3546	1
57DAP/55DAP	0.65615	0.094
62DAP/57DAP	1.73732	0.013
68DAP/62DAP	3.04517	0.011
68DAP/14DAP	4.99636	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.24569

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.44971	0.058
Mature Green Tomato/Ripe Tomato	1.83528	0.237
Immature Eggplant/Mature Eggplant	1.16619	0.205
Ripe Pepper/Ripe Tomato	0.72814	0.224
Mature Eggplant/Ripe Tomato	2.55522	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.83711	0.883
1-1-2/M82	0.97251	1
12-2/M82	1.20363	0.61
12-4/M82	0.66167	0.619
1-3/M82	1.85811	0.255
2-1-1/M82	0.63603	0.465
2-1/M82	0.77369	0.519
2-6/M82	0.96086	1
3-2/M82	1.15228	0.967
4-1-1/M82	0.85583	1
4-1/M82	N/A	N/A
4-3-2/M82	0.90189	1
4-3/M82	1.03265	1
5-3/M82	0.99746	1
6-2/M82	0.7591	0.497
6-3/M82	0.97586	1
7-1/M82	0.82848	0.509
7-2/M82	1.09626	1
9-3-2/M82	0.90723	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7688	0.243
IL2-6/WTpooled	0.62227	0.473
IL7-5/WTpooled	1.08397	1
IL7-3/WTpooled	1.85062	1
IL12-4/WTpooled	1.0913	0.891
IL1-4/WTpooled	1.13347	1
WT/WTpooled	0.88212	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.24446	0.921
DC3000/delta hrp 6h	0.94532	0.95
DC3000/delta hrp 12h	0.96782	1
DC3000/delta hrp 24h	0.90265	0.403

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	0.98903	1
Exp 36h	1.70226	1
Exp 60h	1.48018	1

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	1.06817	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.30196	0.292
transgenic ySAMdc/azygous control (breaker)	0.90658	0.49
transgenic ySAMdc/azygous control (red)	1.37958	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.21777	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68313	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86709	1
Manapal/WT (break)	1.53519	0.183
Manapal/WT (red)	1.09647	0.413