Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27165	0.463
27DAP/17DAP	1.28862	0.761
39DAP/27DAP	0.78824	0.286
41DAP/39DAP	0.98549	0.911
42DAP/41DAP	1.10963	0.941
43DAP/42DAP	0.83373	0.786
47DAP/43DAP	1.28198	0.618
52DAP/47DAP	1.15123	0.842
57DAP/52DAP	1.17364	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01232	1
17DAP/reference	0.84582	0.026
27DAP/reference	1.03346	0.66
39DAP/reference	1.15903	0.117
41DAP/reference	1.09862	0.48
42DAP/reference	1.12909	0.068
43DAP/reference	0.91529	0.073
47DAP/reference	1.12979	0.13
52DAP/reference	1.12974	0.371
57DAP/reference	1.02452	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02773	0.728
27DAP/17DAP	0.94535	0.782
39DAP/27DAP	1.08706	0.691
41DAP/39DAP	1.09616	0.883
42DAP/41DAP	0.84297	0.265
43DAP/42DAP	0.84191	0.082
47DAP/43DAP	0.93682	0.757
52DAP/47DAP	0.94889	0.902
57DAP/52DAP	1.22217	0.529
57DAP/7DAP	1.64256

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88376	0.27
17DAP/reference	0.96411	0.447
27DAP/reference	0.94193	0.248
39DAP/reference	0.97624	0.474
41DAP/reference	1.14422	0.35
42DAP/reference	1.24089	0.308
43DAP/reference	1.0052	0.608
47DAP/reference	1.10805	0.604
52DAP/reference	1.06046	1
57DAP/reference	1.08928	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08992	0.65
17DAP/reference	1.13247	0.375
27DAP/reference	1.29868	0.051
39DAP/reference	1.59352	0.028
41DAP/reference	1.18461	0.221
42DAP/reference	1.39154	0.034
43DAP/reference	1.08948	0.865
47DAP/reference	1.1375	0.124
52DAP/reference	1.16388	0.471
57DAP/reference	1.03375	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.834	0.127
17DAP/reference	1.08382	0.924
27DAP/reference	0.93201	0.49
39DAP/reference	1.36128	0.182
41DAP/reference	1.77233	0.08
42DAP/reference	1.52281	0.08
43DAP/reference	1.80008	0.148
47DAP/reference	1.40595	0.011
52DAP/reference	0.94034	0.518
57DAP/reference	1.80858	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27116	0.966
26DAP/20DAP	0.79828	0.512
34DAP/26DAP	0.81253	0.666
51DAP/34DAP	0.52118
52DAP/51DAP	1.28309	0.542
53DAP/52DAP	42.7187	0.552
55DAP/53DAP	1.20801	0.634
57DAP/55DAP	0.84976	0.56
62DAP/57DAP	1.1147	0.833
68DAP/62DAP	0.99372	0.885
68DAP/14DAP	1.18283	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	7.33906	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.25042	0.478
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.34754	1
Mature Eggplant/Ripe Tomato	1.26638	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.46467	0.574
1-1-2/M82	1.0554	1
12-2/M82	1.32095	0.61
12-4/M82	1.39848	0.694
1-3/M82	0.71448	0.501
2-1-1/M82	0.60394
2-1/M82	N/A	N/A
2-6/M82	0.80559
3-2/M82	N/A	N/A
4-1-1/M82	1.26579
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	1.10667	1
6-2/M82	0.53862	1
6-3/M82	0.98741
7-1/M82	N/A	N/A
7-2/M82	0.72736	0.796
9-3-2/M82	0.91685

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86956	0.243
IL2-6/WTpooled	1.10778	0.788
IL7-5/WTpooled	1.05675
IL7-3/WTpooled	1.19119	1
IL12-4/WTpooled	1.15269	1
IL1-4/WTpooled	1.20124
WT/WTpooled	1.0321	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	1.08492	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12766	0.692
DC3000/delta hrp 6h	1.03455	1
DC3000/delta hrp 12h	1.11179	1
DC3000/delta hrp 24h	0.94428	0.564

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	0.99954	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.73404
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.94851	0.285
Var 60h NI row2-row1	0.98654
Time course 0hI-0hNI	0.99273	1
Time course 12hI-12hNI	0.97071	0.897
Time course 36hI-36hNI	0.83281	0.159
Time course 60hI-60hNI	0.7335	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)	0.96929	0.614
transgenic ySAMdc/azygous control (breaker)	1.38481	1
transgenic ySAMdc/azygous control (red)	1.01087	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98798	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21347	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.52528	0.14
Manapal/WT (break)	1.29728	0.381
Manapal/WT (red)	1.56542	0.133