Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.17.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64959	0.123
27DAP/17DAP	1.57806	0.761
39DAP/27DAP	0.86878	0.573
41DAP/39DAP	0.98651	0.929
42DAP/41DAP	1.31049	0.696
43DAP/42DAP	0.97668	0.909
47DAP/43DAP	1.28174	0.595
52DAP/47DAP	0.82111	0.602
57DAP/52DAP	1.06749	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82399	0.326
17DAP/reference	1.00583	1
27DAP/reference	0.98369	0.725
39DAP/reference	0.94958	0.513
41DAP/reference	1.15265	0.221
42DAP/reference	1.02425	0.842
43DAP/reference	1.06717	0.34
47DAP/reference	0.97173	0.392
52DAP/reference	0.9448	0.167
57DAP/reference	0.73004	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.74284	0.096
27DAP/17DAP	1.1202	0.951
39DAP/27DAP	0.86347	0.211
41DAP/39DAP	1.22019	0.868
42DAP/41DAP	1.09035	0.904
43DAP/42DAP	1.62129	0.446
47DAP/43DAP	1.11811	0.884
52DAP/47DAP	1.13647	0.819
57DAP/52DAP	1.7486	0.038
57DAP/7DAP	0.92091	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04671	0.718
17DAP/reference	1.41533	0.042
27DAP/reference	1.11526	0.06
39DAP/reference	1.42624	0.017
41DAP/reference	1.24233	0.109
42DAP/reference	1.28157	0.233
43DAP/reference	1.45791	0.009
47DAP/reference	0.97577	0.671
52DAP/reference	1.21363	0.058
57DAP/reference	1.39642	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06921	0.545
17DAP/reference	1.12037	0.496
27DAP/reference	1.04054	1
39DAP/reference	0.88687	0.306
41DAP/reference	0.93205	0.256
42DAP/reference	0.83417	0.035
43DAP/reference	1.04663	0.802
47DAP/reference	1.01413	0.916
52DAP/reference	1.04812	0.559
57DAP/reference	1.29887	0.055

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14725
17DAP/reference	1.1652	0.298
27DAP/reference	1.29546	0.035
39DAP/reference	1.28843	0.016
41DAP/reference	1.23531	0.074
42DAP/reference	0.87571	0.22
43DAP/reference	0.81605	0.158
47DAP/reference	0.83469	0.231
52DAP/reference	0.91115	0.334
57DAP/reference	0.81389	0.078

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92538	1
26DAP/20DAP	0.92335	0.512
34DAP/26DAP	3.88382
51DAP/34DAP	1.35466	0.565
52DAP/51DAP	1.48063	0.542
53DAP/52DAP	1.15597	0.921
55DAP/53DAP	0.94545	0.709
57DAP/55DAP	0.86488	0.452
62DAP/57DAP	1.20203	0.257
68DAP/62DAP	0.85392	0.609
68DAP/14DAP	0.70014	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82868	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8515	0.471
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.37442
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.08698	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.11067	1
12-2/M82	N/A	N/A
12-4/M82	0.93608	0.25
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	0.9686	1
6-2/M82	N/A	N/A
6-3/M82	1.00206
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	1.09881	0.277
IL2-6/WTpooled	0.7605	0.383
IL7-5/WTpooled	1.09626	1
IL7-3/WTpooled	0.99974	1
IL12-4/WTpooled	0.93888	0.71
IL1-4/WTpooled	0.80072	0.699
WT/WTpooled	1.12847	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	1.26522	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98309	1
DC3000/delta hrp 6h	1.51326	1
DC3000/delta hrp 12h	1.03677	1
DC3000/delta hrp 24h	0.98705	0.966

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	0.89409	0.328
Exp 36h	0.68601	0.471
Exp 60h	0.77649	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99386	1
Var 0h	2.41073
Var 12h I row2-row1	1.24372	0.443
Var 12h NI row2-row1	1.10761	0.649
Var 36h I row2-row1	0.90823	1
Var 36h NI row2-row1	0.57325	0.421
Var 60h I row2-row1	0.98694
Var 60h NI row2-row1	0.92	0.5
Time course 0hI-0hNI	0.99958	1
Time course 12hI-12hNI	1.20222	0.272
Time course 36hI-36hNI	1.54787	0.004
Time course 60hI-60hNI	2.67924	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)	1.6554	0.23
transgenic ySAMdc/azygous control (breaker)	0.78476	0.251
transgenic ySAMdc/azygous control (red)	1.02381	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75584	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16605	1
Manapal/WT (break)	1.25215	1
Manapal/WT (red)	0.93719	0.607