Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.20.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99254	0.664
27DAP/17DAP	1.42281	0.798
39DAP/27DAP	1.24418	0.876
41DAP/39DAP	1.04426	0.958
42DAP/41DAP	1.33842	0.767
43DAP/42DAP	1.1415	1
47DAP/43DAP	0.79518	0.439
52DAP/47DAP	1.84047	0.48
57DAP/52DAP	1.11879	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97864	0.578
17DAP/reference	1.05532	0.508
27DAP/reference	0.89454	0.187
39DAP/reference	0.97109	0.446
41DAP/reference	0.99008	0.814
42DAP/reference	0.86096	0.01
43DAP/reference	1.01624	0.928
47DAP/reference	1.31365	0.009
52DAP/reference	1.15253	0.167
57DAP/reference	0.89614	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09343	0.515
27DAP/17DAP	1.10518	0.988
39DAP/27DAP	1.525	0.128
41DAP/39DAP	1.31064	0.238
42DAP/41DAP	0.75126	0.04
43DAP/42DAP	0.58619	0.022
47DAP/43DAP	1.16417	0.837
52DAP/47DAP	1.66937	0.097
57DAP/52DAP	0.63718	0.067
57DAP/7DAP	0.78604	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87248	0.138
17DAP/reference	0.92205	0.22
27DAP/reference	0.83482	0.039
39DAP/reference	0.85601	0.126
41DAP/reference	0.90715	0.271
42DAP/reference	1.15351	1
43DAP/reference	0.84649	0.038
47DAP/reference	0.85892	0.222
52DAP/reference	1.05993	0.563
57DAP/reference	0.86911	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02766	0.863
17DAP/reference	0.89335	0.099
27DAP/reference	0.89335	0.181
39DAP/reference	0.8702	0.06
41DAP/reference	0.75517	0.01
42DAP/reference	0.84044	0.042
43DAP/reference	1.05136	0.939
47DAP/reference	1.06916	0.513
52DAP/reference	0.86603	0.004
57DAP/reference	1.10641	0.14

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0638	0.676
17DAP/reference	0.91161	0.488
27DAP/reference	0.9204	0.27
39DAP/reference	0.84914	0.069
41DAP/reference	0.93502	0.331
42DAP/reference	0.87687	0.087
43DAP/reference	0.91158	0.256
47DAP/reference	0.81703	0.014
52DAP/reference	0.87871	0.289
57DAP/reference	1.02484	0.753

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18632	0.966
26DAP/20DAP	1.14226	0.905
34DAP/26DAP	1.17237	0.078
51DAP/34DAP	1.66761	0.416
52DAP/51DAP	1.19959	1
53DAP/52DAP	1.21937	0.783
55DAP/53DAP	1.29056	0.722
57DAP/55DAP	1.46802	0.61
62DAP/57DAP	1.03055	0.902
68DAP/62DAP	1.0873	0.872
68DAP/14DAP	0.66282	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.6209	0.026

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	1.5519	0.061
Ripe Pepper/Ripe Tomato	0.09845	0.224
Mature Eggplant/Ripe Tomato	0.09342	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.88974
12-2/M82	1.12687
12-4/M82	N/A	N/A
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	1.29364	0.594
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	1.21049
5-3/M82	0.94858	0.642
6-2/M82	1.12279
6-3/M82	1.73737
7-1/M82	N/A	N/A
7-2/M82	2.48101
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.13143	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98558	1
DC3000/delta hrp 6h	1.06464	1
DC3000/delta hrp 12h	1.03696	1
DC3000/delta hrp 24h	0.87327	0.285

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	0.89795	1
Exp 36h	1.00768	1
Exp 60h	0.75251	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0234	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.63439	0.296
Var 12h NI row2-row1	1.59005	0.161
Var 36h I row2-row1	1.08173	1
Var 36h NI row2-row1	1.0868	0.276
Var 60h I row2-row1	0.94585	0.285
Var 60h NI row2-row1	0.56369	0.431
Time course 0hI-0hNI	1.22024	0.451
Time course 12hI-12hNI	4.04136	0.004
Time course 36hI-36hNI	3.60925	0.004
Time course 60hI-60hNI	3.79768	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)	1.57544	0.268
transgenic ySAMdc/azygous control (breaker)	2.87975	0.161
transgenic ySAMdc/azygous control (red)	0.8901	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92256	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.51864	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.88226	0.096
Manapal/WT (break)	1.36831	1
Manapal/WT (red)	0.75028	0.607