Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.3.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.74037	0.336
27DAP/17DAP	1.09382	1
39DAP/27DAP	1.6616	0.615
41DAP/39DAP	0.97601	0.883
42DAP/41DAP	1.83308	0.654
43DAP/42DAP	0.67524	0.743
47DAP/43DAP	0.91734	0.562
52DAP/47DAP	1.11032	0.95
57DAP/52DAP	1.53863	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89357	0.503
17DAP/reference	1.21793	0.717
27DAP/reference	1.44933	0.009
39DAP/reference	0.65861
41DAP/reference	0.71721	0.267
42DAP/reference	N/A	N/A
43DAP/reference	0.50125
47DAP/reference	0.71811
52DAP/reference	0.57675
57DAP/reference	0.22366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07862
27DAP/17DAP	3.62817	0.872
39DAP/27DAP	1.4572
41DAP/39DAP	0.73434	0.03
42DAP/41DAP	1.42901	0.675
43DAP/42DAP	2.23897	0.297
47DAP/43DAP	1.62458	0.206
52DAP/47DAP	1.40346	0.308
57DAP/52DAP	0.8688	0.56
57DAP/7DAP	1.73899	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.61747	0.073
17DAP/reference	0.77312	0.082
27DAP/reference	1.05533	0.664
39DAP/reference	0.54944	0.023
41DAP/reference	0.5526	0.013
42DAP/reference	0.57358	0.011
43DAP/reference	0.73554	0.054
47DAP/reference	0.63618	0.079
52DAP/reference	0.4554	0.012
57DAP/reference	0.64126	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09756	0.67
17DAP/reference	0.59904
27DAP/reference	0.92524	0.483
39DAP/reference	1.04379	0.745
41DAP/reference	1.88668
42DAP/reference	N/A	N/A
43DAP/reference	1.26303	0.688
47DAP/reference	1.81214	0.071
52DAP/reference	0.5826	0.156
57DAP/reference	1.24952

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70346	0.054
17DAP/reference	0.8005	0.109
27DAP/reference	0.99474	0.763
39DAP/reference	0.96265	0.464
41DAP/reference	0.80439	0.064
42DAP/reference	0.7995	0.023
43DAP/reference	0.89884	0.305
47DAP/reference	2.90947
52DAP/reference	1.3709	0.663
57DAP/reference	1.56772	0.239

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.59582	0.56
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.80277	0.682
51DAP/34DAP	1.31099	0.565
52DAP/51DAP	0.90305	1
53DAP/52DAP	N/A	N/A
55DAP/53DAP	0.85521	0.445
57DAP/55DAP	N/A	N/A
62DAP/57DAP	1.30628	0.902
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.86123	0.055

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.22066
Mature Eggplant/Ripe Tomato	0.1715	0.231

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00806	1
1-1-2/M82	1.0017	1
12-2/M82	1.05112	1
12-4/M82	0.96819	0.358
1-3/M82	1.43267	0.479
2-1-1/M82	0.8543	0.465
2-1/M82	0.59364	0.322
2-6/M82	1.0255	1
3-2/M82	N/A	N/A
4-1-1/M82	1.05878	1
4-1/M82	1.17902
4-3-2/M82	1.73844
4-3/M82	1.131	1
5-3/M82	0.8377	1
6-2/M82	1.03097	1
6-3/M82	0.93456	1
7-1/M82	0.88267	0.443
7-2/M82	0.96908	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.38083
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.70743	0.581
IL1-4/WTpooled	1.04666	1
WT/WTpooled	0.80704

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	1.05344	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.9717	0.84

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.64819	0.181