Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83679	0.578
27DAP/17DAP	1.25891	0.845
39DAP/27DAP	0.82288	0.564
41DAP/39DAP	0.66547	0.15
42DAP/41DAP	0.81131	1
43DAP/42DAP	1.09939	0.991
47DAP/43DAP	1.45389	0.502
52DAP/47DAP	1.54702	0.535
57DAP/52DAP	1.07073	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95924	0.432
17DAP/reference	0.99727	0.858
27DAP/reference	1.01328	0.885
39DAP/reference	1.23796	0.057
41DAP/reference	1.04612	0.808
42DAP/reference	1.1904	0.012
43DAP/reference	1.36724	0.008
47DAP/reference	1.43601	0.003
52DAP/reference	1.01163	1
57DAP/reference	1.16478	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27403
27DAP/17DAP	0.69563	0.195
39DAP/27DAP	0.8428
41DAP/39DAP	0.81507
42DAP/41DAP	1.01876	0.768
43DAP/42DAP	1.25664
47DAP/43DAP	1.0697	0.973
52DAP/47DAP	0.62163	0.058
57DAP/52DAP	N/A	N/A
57DAP/7DAP	2.3639	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99279	0.682
17DAP/reference	1.08834	0.574
27DAP/reference	0.89638	0.264
39DAP/reference	1.07737	0.669
41DAP/reference	1.09639	0.767
42DAP/reference	1.04826	0.405
43DAP/reference	0.9161	0.292
47DAP/reference	1.1994	0.158
52DAP/reference	1.05471	0.491
57DAP/reference	0.92868	0.28

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92542	0.362
17DAP/reference	1.19443	0.03
27DAP/reference	1.26363	0.118
39DAP/reference	0.94947	0.33
41DAP/reference	1.08674	0.277
42DAP/reference	1.21323	0.051
43DAP/reference	1.38935	0.105
47DAP/reference	1.43069	0.008
52DAP/reference	1.13613	0.279
57DAP/reference	1.29494	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11367	0.545
17DAP/reference	0.967	0.571
27DAP/reference	1.08886	0.26
39DAP/reference	0.96989	0.464
41DAP/reference	0.92479	0.331
42DAP/reference	1.15985	0.391
43DAP/reference	1.13207	0.474
47DAP/reference	1.56187	0.005
52DAP/reference	1.13791	0.592
57DAP/reference	1.15354	0.298

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0977	0.966
26DAP/20DAP	1.05939	0.798
34DAP/26DAP	2.25035	0.154
51DAP/34DAP	1.36745	0.473
52DAP/51DAP	0.47931
53DAP/52DAP	1.07182	0.662
55DAP/53DAP	1.77241	0.722
57DAP/55DAP	1.10656	0.474
62DAP/57DAP	1.13345	0.902
68DAP/62DAP	1.10972	1
68DAP/14DAP	0.90399	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.65535	0.049

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.90733
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.76196	1
Mature Eggplant/Ripe Tomato	0.38847

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15789
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.71363
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.86313
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.42342
IL2-6/WTpooled	1.12314	0.531
IL7-5/WTpooled	1.38166
IL7-3/WTpooled	1.08323	1
IL12-4/WTpooled	1.08648	0.513
IL1-4/WTpooled	0.94902	1
WT/WTpooled	0.99299	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	0.93821	1
DC3000/delta hrp 6h	1.83766	1
DC3000/delta hrp 12h	1.14593	1
DC3000/delta hrp 24h	0.75695	0.124

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	1.08468	1
Exp 36h	N/A	N/A
Exp 60h	0.98324	0.994

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	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)	0.97049	0.391
transgenic ySAMdc/azygous control (breaker)	1.40388	0.178
transgenic ySAMdc/azygous control (red)	1.04295	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02403	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9689	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.68359	1
Manapal/WT (break)	0.9737	1
Manapal/WT (red)	1.28424	0.413