Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.15.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0897	0.709
27DAP/17DAP	1.31422	0.799
39DAP/27DAP	0.91738	0.631
41DAP/39DAP	1.3114	0.286
42DAP/41DAP	1.13171	0.962
43DAP/42DAP	1.14267	1
47DAP/43DAP	1.17662	0.889
52DAP/47DAP	1.94282	0.24
57DAP/52DAP	0.90457	0.803

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92187	0.231
17DAP/reference	0.94048	0.194
27DAP/reference	0.99014	0.725
39DAP/reference	0.98553	0.704
41DAP/reference	0.85893	0.085
42DAP/reference	0.89312	0.007
43DAP/reference	0.9921	0.82
47DAP/reference	0.90188	0.035
52DAP/reference	1.00743	1
57DAP/reference	1.03492	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88125	0.402
27DAP/17DAP	0.95399	0.821
39DAP/27DAP	1.05984	0.691
41DAP/39DAP	1.05154	1
42DAP/41DAP	1.04699	1
43DAP/42DAP	0.98884	0.875
47DAP/43DAP	1.09533	0.63
52DAP/47DAP	0.99955	0.935
57DAP/52DAP	0.929	0.612
57DAP/7DAP	1.2331	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08622	0.452
17DAP/reference	1.54468	0.006
27DAP/reference	1.40169	0.009
39DAP/reference	1.56537	0.005
41DAP/reference	1.53083	0.013
42DAP/reference	1.66274	0.007
43DAP/reference	1.81369	0.011
47DAP/reference	1.29432	0.298
52DAP/reference	1.44549	0.007
57DAP/reference	1.37654	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97249	0.688
17DAP/reference	0.94531	0.208
27DAP/reference	0.9189	0.327
39DAP/reference	0.89102	0.178
41DAP/reference	0.89925	0.188
42DAP/reference	0.8633	0.027
43DAP/reference	0.91803	0.404
47DAP/reference	0.97048	0.446
52DAP/reference	0.97542	0.469
57DAP/reference	1.04491	0.724

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09679	0.311
17DAP/reference	1.20937	0.42
27DAP/reference	1.60121	0.017
39DAP/reference	1.56901	0.015
41DAP/reference	1.38678	0.025
42DAP/reference	1.29799	0.086
43DAP/reference	1.20133	0.7
47DAP/reference	1.00819	0.754
52DAP/reference	1.55872	0.155
57DAP/reference	1.08744	0.828

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99665	1
26DAP/20DAP	0.8757	0.317
34DAP/26DAP	1.13459	1
51DAP/34DAP	0.94135	0.698
52DAP/51DAP	1.08563	0.704
53DAP/52DAP	1.22713	0.274
55DAP/53DAP	1.12254	0.566
57DAP/55DAP	0.85761	0.259
62DAP/57DAP	1.2041	0.622
68DAP/62DAP	0.69089	0.177
68DAP/14DAP	0.76157	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89418	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.81053	0.107
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.36155
Mature Eggplant/Ripe Tomato	1.2567

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09143	1
1-1-2/M82	0.99681	1
12-2/M82	1.31716	1
12-4/M82	0.94817	1
1-3/M82	0.81645	0.501
2-1-1/M82	1.26826
2-1/M82	N/A	N/A
2-6/M82	1.05901	0.405
3-2/M82	0.79751
4-1-1/M82	1.04282	1
4-1/M82	1.25051
4-3-2/M82	0.98248	1
4-3/M82	0.89924	1
5-3/M82	0.98256	1
6-2/M82	0.81457	0.497
6-3/M82	1.0859	1
7-1/M82	1.08289
7-2/M82	1.05718	1
9-3-2/M82	0.79686	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.05485	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05108	1
IL12-4/WTpooled	1.93158
IL1-4/WTpooled	1.01358	1
WT/WTpooled	0.9983	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	1.07449	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04474	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.25701	1
DC3000/delta hrp 24h	1.08889	0.582

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	1.0511	0.694

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.35081	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.986	1
Var 0h	1.0229	1
Var 12h I row2-row1	1.03473	0.736
Var 12h NI row2-row1	0.9196	0.466
Var 36h I row2-row1	0.76093	1
Var 36h NI row2-row1	0.83472	0.549
Var 60h I row2-row1	1.84822	0.562
Var 60h NI row2-row1	1.24528	0.904
Time course 0hI-0hNI	1.16194	0.719
Time course 12hI-12hNI	1.07908	0.734
Time course 36hI-36hNI	0.9182	0.198
Time course 60hI-60hNI	1.3412	0.042

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)	0.99082	0.862
transgenic ySAMdc/azygous control (breaker)	0.84749	0.173
transgenic ySAMdc/azygous control (red)	0.95369	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01683	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76612	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.65287	0.172
Manapal/WT (break)	0.71647	0.333
Manapal/WT (red)	0.92501	0.607