Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.1.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06851	0.912
27DAP/17DAP	0.52394	0.031
39DAP/27DAP	1.11306	0.84
41DAP/39DAP	0.63566	0.055
42DAP/41DAP	1.13725	0.898
43DAP/42DAP	0.92415	0.759
47DAP/43DAP	0.8737	0.58
52DAP/47DAP	1.51778	0.268
57DAP/52DAP	0.89038	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74208	0.067
17DAP/reference	0.56316	0.009
27DAP/reference	0.55483	0.012
39DAP/reference	0.60503	0.011
41DAP/reference	0.5044	0.009
42DAP/reference	0.84998	0.048
43DAP/reference	0.73661	0.073
47DAP/reference	0.74456	0.006
52DAP/reference	0.64042	0.028
57DAP/reference	0.86871	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44375	0.041
27DAP/17DAP	0.6842	0.101
39DAP/27DAP	0.57581	0.029
41DAP/39DAP	1.09378	0.753
42DAP/41DAP	0.92141	0.382
43DAP/42DAP	0.99298	0.96
47DAP/43DAP	1.12336	0.383
52DAP/47DAP	0.75808	0.042
57DAP/52DAP	1.32042	0.228
57DAP/7DAP	0.84236	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1523	0.286
17DAP/reference	0.84309	0.02
27DAP/reference	0.70285	0.01
39DAP/reference	0.88097	0.043
41DAP/reference	0.69937	0.013
42DAP/reference	0.78357	0.011
43DAP/reference	0.94478	0.279
47DAP/reference	0.7538	0.04
52DAP/reference	1.04139	0.781
57DAP/reference	0.97949	0.477

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.54597	0.01
17DAP/reference	0.44348	0.007
27DAP/reference	0.66868	0.054
39DAP/reference	0.51334	0.021
41DAP/reference	0.65718	0.024
42DAP/reference	0.82804	0.108
43DAP/reference	0.35586	0.002
47DAP/reference	0.83721	0.047
52DAP/reference	0.71391	0.131
57DAP/reference	0.81976	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.17518	0.018
17DAP/reference	1.62149	0.145
27DAP/reference	1.27296	0.051
39DAP/reference	0.98925	0.693
41DAP/reference	0.82827	0.096
42DAP/reference	0.58733	0.016
43DAP/reference	0.66648	0.018
47DAP/reference	0.52277	0.004
52DAP/reference	0.76424	0.164
57DAP/reference	1.18683	0.274

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28031	0.966
26DAP/20DAP	1.15181	0.826
34DAP/26DAP	0.86362	0.561
51DAP/34DAP	0.50587	0.049
52DAP/51DAP	0.90284	1
53DAP/52DAP	0.91274	0.612
55DAP/53DAP	0.78662	0.21
57DAP/55DAP	1.33196	0.34
62DAP/57DAP	1.70787	0.002
68DAP/62DAP	0.89418	0.722
68DAP/14DAP	1.00911	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84958	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.27812	0.058
Mature Green Tomato/Ripe Tomato	0.94392	0.66
Immature Eggplant/Mature Eggplant	1.52629	0.05
Ripe Pepper/Ripe Tomato	0.95639	1
Mature Eggplant/Ripe Tomato	1.22041	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97465	0.841
1-1-2/M82	1.09795	1
12-2/M82	0.92161	0.955
12-4/M82	0.83428	1
1-3/M82	1.81048	0.248
2-1-1/M82	1.18323	0.764
2-1/M82	0.83198	0.345
2-6/M82	1.23592	0.505
3-2/M82	1.08647
4-1-1/M82	1.45715	0.968
4-1/M82	0.71346
4-3-2/M82	1.48983	0.508
4-3/M82	1.66775	1
5-3/M82	0.79478	0.447
6-2/M82	1.03458	1
6-3/M82	0.9881	1
7-1/M82	0.92751
7-2/M82	0.85008	0.796
9-3-2/M82	1.87489

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89548
IL2-6/WTpooled	1.29654	0.659
IL7-5/WTpooled	1.85904	0.792
IL7-3/WTpooled	1.00398
IL12-4/WTpooled	0.85434
IL1-4/WTpooled	1.15447	1
WT/WTpooled	1.12893	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	1.10213	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97444	1
DC3000/delta hrp 6h	0.95327	0.95
DC3000/delta hrp 12h	1.22781
DC3000/delta hrp 24h	0.95054	0.607

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.43006	0.034
DC3000 delta B/DC3000 delta AB	0.33785	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0211	1
Exp 36h	0.80278	0.589
Exp 60h	0.70582	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99056	1
Var 0h	0.44018	0.237
Var 12h I row2-row1	0.75684	0.338
Var 12h NI row2-row1	1.08101	1
Var 36h I row2-row1	0.92239	0.805
Var 36h NI row2-row1	0.98404	0.852
Var 60h I row2-row1	1.53111	0.562
Var 60h NI row2-row1	1.03953	1
Time course 0hI-0hNI	0.93276	0.497
Time course 12hI-12hNI	1.03515	0.81
Time course 36hI-36hNI	0.84077	0.024
Time course 60hI-60hNI	0.11634	0.005

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)	0.93703	0.614
transgenic ySAMdc/azygous control (breaker)	1.56136	0.178
transgenic ySAMdc/azygous control (red)	0.65536	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.84827	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.96019	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	6.60371	0.105
Manapal/WT (break)	3.46379	0.13
Manapal/WT (red)	1.15718	1