Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.5.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45447	0.037
27DAP/17DAP	0.94651	0.923
39DAP/27DAP	0.9803	0.749
41DAP/39DAP	1.01474	0.941
42DAP/41DAP	1.02585	0.978
43DAP/42DAP	0.92494	0.77
47DAP/43DAP	0.96136	0.825
52DAP/47DAP	0.98328	0.932
57DAP/52DAP	0.97532	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26222	0.46
17DAP/reference	1.51524	0.258
27DAP/reference	1.27649	0.264
39DAP/reference	1.17224	0.497
41DAP/reference	1.28583	0.171
42DAP/reference	1.2012	0.414
43DAP/reference	0.97251	0.728
47DAP/reference	1.33092	0.215
52DAP/reference	1.78891	0.32
57DAP/reference	1.097	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22568	0.119
27DAP/17DAP	0.91564	0.508
39DAP/27DAP	0.96437	0.821
41DAP/39DAP	0.98561	1
42DAP/41DAP	0.9637	0.708
43DAP/42DAP	0.95998	0.399
47DAP/43DAP	1.02553	0.939
52DAP/47DAP	0.99815	0.975
57DAP/52DAP	0.89042	0.39
57DAP/7DAP	1.30226	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34035	0.037
17DAP/reference	1.36661	0.022
27DAP/reference	1.09027	0.664
39DAP/reference	1.46478	0.006
41DAP/reference	1.11239	0.577
42DAP/reference	1.19166	0.174
43DAP/reference	1.00569	0.764
47DAP/reference	1.49322	0.161
52DAP/reference	1.25957	0.081
57DAP/reference	1.42249	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28509
17DAP/reference	N/A	N/A
27DAP/reference	0.94051	0.501
39DAP/reference	1.49941	0.335
41DAP/reference	0.69963
42DAP/reference	1.22237	0.068
43DAP/reference	0.98422	0.692
47DAP/reference	1.01426	0.678
52DAP/reference	1.45396	0.006
57DAP/reference	1.38886	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07195	0.644
17DAP/reference	1.05674	0.482
27DAP/reference	0.90517	0.069
39DAP/reference	1.09902	0.353
41DAP/reference	0.97045	0.459
42DAP/reference	0.97345	0.671
43DAP/reference	0.86757	0.081
47DAP/reference	1.35918	0.63
52DAP/reference	1.19079	0.42
57DAP/reference	1.48129	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.69463	0.841
26DAP/20DAP	0.91938	0.512
34DAP/26DAP	1.07603	0.819
51DAP/34DAP	1.09136	0.496
52DAP/51DAP	0.96101	1
53DAP/52DAP	1.02885	0.921
55DAP/53DAP	0.99396	0.894
57DAP/55DAP	0.98861	0.821
62DAP/57DAP	1.14258	0.833
68DAP/62DAP	1.05917	0.991
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22309	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.27459	0.185
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.81601
Mature Eggplant/Ripe Tomato	0.6559	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04821	1
1-1-2/M82	1.24084	1
12-2/M82	0.70763	0.862
12-4/M82	0.96061	0.619
1-3/M82	2.47731	0.255
2-1-1/M82	1.1132	0.32
2-1/M82	0.36909	0.322
2-6/M82	0.7738	0.501
3-2/M82	0.97109	1
4-1-1/M82	0.84686	1
4-1/M82	0.85714	0.737
4-3-2/M82	1.0463	0.262
4-3/M82	1.11633	1
5-3/M82	1.13178	1
6-2/M82	1.11037	1
6-3/M82	0.98306	1
7-1/M82	1.1849	0.87
7-2/M82	0.93706	0.881
9-3-2/M82	0.89268	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.26213
IL2-6/WTpooled	0.94516	1
IL7-5/WTpooled	1.30905
IL7-3/WTpooled	1.01074	1
IL12-4/WTpooled	1.23538	0.673
IL1-4/WTpooled	0.82617	0.699
WT/WTpooled	0.97968	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	1.01169	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.27629	0.692
DC3000/delta hrp 6h	0.55356
DC3000/delta hrp 12h	0.61403
DC3000/delta hrp 24h	1.22854	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29042	0.408
DC3000 delta B/DC3000 delta AB	1.134	0.332

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	0.96516	1
Var 0h	0.68124	0.244
Var 12h I row2-row1	1.23084	0.406
Var 12h NI row2-row1	1.0117	1
Var 36h I row2-row1	1.25075	0.601
Var 36h NI row2-row1	1.07441	1
Var 60h I row2-row1	0.96882	0.832
Var 60h NI row2-row1	0.93944	0.756
Time course 0hI-0hNI	0.99909	1
Time course 12hI-12hNI	1.04305	0.668
Time course 36hI-36hNI	1.44267	0.006
Time course 60hI-60hNI	1.84727	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)	1.69679	1
transgenic ySAMdc/azygous control (breaker)	1.57511	1
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	0.95805	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81662	1
Manapal/WT (break)	1.06401	0.381
Manapal/WT (red)	0.89535	0.181