Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10362	0.786
27DAP/17DAP	1.16005	0.844
39DAP/27DAP	0.96893	0.749
41DAP/39DAP	0.98406	0.919
42DAP/41DAP	0.82495	0.774
43DAP/42DAP	1.16983	0.873
47DAP/43DAP	1.04891	0.794
52DAP/47DAP	1.26995	0.483
57DAP/52DAP	1.48616	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94047	0.317
17DAP/reference	0.91313	0.104
27DAP/reference	1.06094	0.498
39DAP/reference	1.1871	0.106
41DAP/reference	0.96638	0.542
42DAP/reference	0.98633	0.425
43DAP/reference	1.15503	0.202
47DAP/reference	1.12825	0.448
52DAP/reference	1.0042	0.791
57DAP/reference	1.02159	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18496	0.154
27DAP/17DAP	0.93147	0.782
39DAP/27DAP	0.86532	0.269
41DAP/39DAP	0.97071	0.945
42DAP/41DAP	1.31351	0.011
43DAP/42DAP	0.65204	0.022
47DAP/43DAP	0.83569	0.184
52DAP/47DAP	2.39457	0.048
57DAP/52DAP	2.5102	0.033
57DAP/7DAP	2.15189	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03449	0.91
17DAP/reference	1.23148	0.023
27DAP/reference	1.30518	0.02
39DAP/reference	1.42528	0.007
41DAP/reference	1.03303	0.918
42DAP/reference	1.18702	0.046
43DAP/reference	1.31959	0.013
47DAP/reference	1.21389	0.052
52DAP/reference	1.02689	1
57DAP/reference	1.20951	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92388	0.342
17DAP/reference	0.96772	0.561
27DAP/reference	0.98385	0.554
39DAP/reference	1.07132	0.571
41DAP/reference	1.05104	0.981
42DAP/reference	0.85725	0.189
43DAP/reference	0.84054	0.084
47DAP/reference	1.0197	0.965
52DAP/reference	0.93501	0.327
57DAP/reference	0.77942	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22531	0.074
17DAP/reference	1.05254	0.854
27DAP/reference	1.70906	0.017
39DAP/reference	1.36046	0.025
41DAP/reference	1.08301	0.734
42DAP/reference	1.21731	0.189
43DAP/reference	0.97346	0.523
47DAP/reference	0.98175	0.538
52DAP/reference	1.29403	0.289
57DAP/reference	0.90486	0.174

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16876	0.966
26DAP/20DAP	2.02354	1
34DAP/26DAP	4.55454	0.819
51DAP/34DAP	1.23561	0.807
52DAP/51DAP	5.09367	0.033
53DAP/52DAP	0.62119	0.049
55DAP/53DAP	1.67113	0.039
57DAP/55DAP	0.33952	0.014
62DAP/57DAP	1.57458	0.569
68DAP/62DAP	4.06027	0.7
68DAP/14DAP	0.66596	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.19221	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.17113	0.437
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.11593	0.293
Mature Eggplant/Ripe Tomato	0.09786	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92029
1-1-2/M82	1.14009
12-2/M82	N/A	N/A
12-4/M82	0.84161	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.17004
2-1/M82	N/A	N/A
2-6/M82	0.83901
3-2/M82	0.89339
4-1-1/M82	1.01711
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.95974	1
5-3/M82	1.14923	1
6-2/M82	N/A	N/A
6-3/M82	0.94782
7-1/M82	1.53083
7-2/M82	1.57329	0.282
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85754	0.321
IL2-6/WTpooled	0.94795	1
IL7-5/WTpooled	0.7646	1
IL7-3/WTpooled	0.94645	1
IL12-4/WTpooled	1.11272	0.673
IL1-4/WTpooled	0.93684	0.699
WT/WTpooled	1.00736	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	0.97173	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.77063	0.697
DC3000/delta hrp 6h	1.13491	1
DC3000/delta hrp 12h	1.16407	1
DC3000/delta hrp 24h	0.93829	0.494

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07191	0.27
DC3000 delta B/DC3000 delta AB	1.28172	0.23

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28347	1
Exp 36h	1.24211	1
Exp 60h	1.10928	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01009	1
Var 0h	1.04584	1
Var 12h I row2-row1	0.84773	0.39
Var 12h NI row2-row1	1.0403	1
Var 36h I row2-row1	1.01084	1
Var 36h NI row2-row1	1.27053	0.482
Var 60h I row2-row1	0.82352	0.285
Var 60h NI row2-row1	1.00069	1
Time course 0hI-0hNI	0.93532	0.6
Time course 12hI-12hNI	1.02806	0.892
Time course 36hI-36hNI	0.86854	0.028
Time course 60hI-60hNI	0.40298	0.006

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)	1.22204	0.36
transgenic ySAMdc/azygous control (breaker)	0.55056	0.173
transgenic ySAMdc/azygous control (red)	0.87759	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.37213	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86986	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77781	1
Manapal/WT (break)	1.14177	1
Manapal/WT (red)	0.7721	0.181