Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.14.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95831	0.683
27DAP/17DAP	1.15668	0.847
39DAP/27DAP	0.91603	0.631
41DAP/39DAP	1.14534	0.63
42DAP/41DAP	1.01162	1
43DAP/42DAP	1.1319	0.974
47DAP/43DAP	0.98553	0.868
52DAP/47DAP	1.06684	0.994
57DAP/52DAP	1.20425	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45297	0.007
17DAP/reference	1.24464	0.029
27DAP/reference	1.42731	0.019
39DAP/reference	0.89348	0.194
41DAP/reference	0.82364	0.009
42DAP/reference	1.10817	0.053
43DAP/reference	0.88407	0.118
47DAP/reference	0.77998	0.004
52DAP/reference	0.73746	0.022
57DAP/reference	0.91505	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89158	0.496
27DAP/17DAP	0.9251	0.782
39DAP/27DAP	0.96857	0.784
41DAP/39DAP	0.92983	0.781
42DAP/41DAP	1.06435	0.824
43DAP/42DAP	1.18939	0.061
47DAP/43DAP	0.93353	0.677
52DAP/47DAP	1.00441	0.935
57DAP/52DAP	1.02741	0.897
57DAP/7DAP	1.20658	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42331	0.029
17DAP/reference	1.43506	0.038
27DAP/reference	1.32701	0.014
39DAP/reference	1.54018	0.007
41DAP/reference	1.1056	0.593
42DAP/reference	1.57618	0.009
43DAP/reference	1.4567	0.045
47DAP/reference	1.11358	0.948
52DAP/reference	1.48986	0.007
57DAP/reference	1.2743	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36001	0.102
17DAP/reference	1.42254	0.015
27DAP/reference	1.30631	0.149
39DAP/reference	0.7461	0.008
41DAP/reference	0.96032	0.364
42DAP/reference	1.08958	0.488
43DAP/reference	0.76255	0.039
47DAP/reference	0.86861	0.048
52DAP/reference	0.69391	0.005
57DAP/reference	0.57571	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19154	0.265
17DAP/reference	1.30419	0.241
27DAP/reference	1.31717	0.02
39DAP/reference	1.089	0.254
41DAP/reference	1.04613	0.734
42DAP/reference	1.04661	0.907
43DAP/reference	1.05977	0.439
47DAP/reference	0.95518	0.286
52DAP/reference	1.12067	0.534
57DAP/reference	1.03442	0.771

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01494	1
26DAP/20DAP	0.95893	1
34DAP/26DAP	0.95309	0.879
51DAP/34DAP	0.98744	0.893
52DAP/51DAP	0.94251	1
53DAP/52DAP	1.21235	0.643
55DAP/53DAP	1.29557	0.555
57DAP/55DAP	0.8641	0.452
62DAP/57DAP	1.26565	0.081
68DAP/62DAP	1.12042	0.754
68DAP/14DAP	0.93722	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23312	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.45823	0.058
Mature Green Tomato/Ripe Tomato	0.87155	0.487
Immature Eggplant/Mature Eggplant	0.30573	0.057
Ripe Pepper/Ripe Tomato	7.92512	0.251
Mature Eggplant/Ripe Tomato	10.0366	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.01613	1
12-2/M82	0.8351	0.678
12-4/M82	1.07096	1
1-3/M82	N/A	N/A
2-1-1/M82	0.58685
2-1/M82	0.52537
2-6/M82	2.28067
3-2/M82	1.05952	0.84
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.06413	0.241
4-3/M82	N/A	N/A
5-3/M82	0.88013	1
6-2/M82	2.21225
6-3/M82	1.09476
7-1/M82	0.81834
7-2/M82	1.72742
9-3-2/M82	1.33578	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01831	1
IL2-6/WTpooled	0.5666
IL7-5/WTpooled	0.90609	1
IL7-3/WTpooled	0.96374	0.418
IL12-4/WTpooled	0.97576	1
IL1-4/WTpooled	0.9526	0.562
WT/WTpooled	0.95295	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	1.11172	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0139	0.921
DC3000/delta hrp 6h	0.98434	0.95
DC3000/delta hrp 12h	1.04949	1
DC3000/delta hrp 24h	0.35761	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.55947
DC3000 delta B/DC3000 delta AB	1.03612	0.761

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94842	1
Exp 36h	0.82573	0.539
Exp 60h	0.64112	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9996	1
Var 0h	0.5728	0.98
Var 12h I row2-row1	0.89119	0.338
Var 12h NI row2-row1	1.02072	1
Var 36h I row2-row1	1.1598	0.742
Var 36h NI row2-row1	0.8617	0.549
Var 60h I row2-row1	0.80661	0.439
Var 60h NI row2-row1	0.86218	0.69
Time course 0hI-0hNI	1.13772	0.344
Time course 12hI-12hNI	1.0029	1
Time course 36hI-36hNI	1.21294	0.028
Time course 60hI-60hNI	1.32652	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)	0.98063	0.722
transgenic ySAMdc/azygous control (breaker)	0.81059	0.251
transgenic ySAMdc/azygous control (red)	1.11705	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88319	0.16

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.44416	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.78059	0.087
Manapal/WT (break)	1.66551	0.183
Manapal/WT (red)	1.48133	0.413