Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17695	0.588
27DAP/17DAP	1.19375	0.864
39DAP/27DAP	0.81935	0.573
41DAP/39DAP	1.29996	0.149
42DAP/41DAP	1.17618	0.899
43DAP/42DAP	0.88618	0.795
47DAP/43DAP	0.9169	0.701
52DAP/47DAP	1.48569	0.346
57DAP/52DAP	0.99053	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02896	0.544
17DAP/reference	1.07234	0.086
27DAP/reference	1.02883	0.539
39DAP/reference	0.9247	0.35
41DAP/reference	1.05159	0.338
42DAP/reference	0.9462	0.05
43DAP/reference	1.0139	0.838
47DAP/reference	0.8975	0.013
52DAP/reference	0.83742	0.03
57DAP/reference	0.81517	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98259	0.697
27DAP/17DAP	1.06033	0.831
39DAP/27DAP	0.98086	0.908
41DAP/39DAP	1.10294	0.868
42DAP/41DAP	0.97937	0.787
43DAP/42DAP	0.96488	0.684
47DAP/43DAP	1.03549	0.88
52DAP/47DAP	0.99872	0.975
57DAP/52DAP	0.99033	0.818
57DAP/7DAP	1.10448	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8893	0.157
17DAP/reference	0.8853	0.014
27DAP/reference	0.82582	0.012
39DAP/reference	0.93759	0.02
41DAP/reference	0.91153	0.038
42DAP/reference	0.87833	0.011
43DAP/reference	0.90968	0.02
47DAP/reference	0.85417	0.026
52DAP/reference	0.85448	0.026
57DAP/reference	0.92154	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05587	0.605
17DAP/reference	1.05818	0.348
27DAP/reference	0.90439	0.155
39DAP/reference	0.90481	0.129
41DAP/reference	0.91746	0.16
42DAP/reference	1.00738	0.723
43DAP/reference	1.07923	0.453
47DAP/reference	1.05998	0.366
52DAP/reference	0.96583	0.239
57DAP/reference	1.18749	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90393	0.135
17DAP/reference	1.02621	0.854
27DAP/reference	0.84816	0.024
39DAP/reference	0.85985	0.033
41DAP/reference	0.87098	0.096
42DAP/reference	0.80622	0.028
43DAP/reference	0.82484	0.056
47DAP/reference	0.95531	0.409
52DAP/reference	0.81697	0.125
57DAP/reference	0.60122	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93631	0.961
26DAP/20DAP	0.95055	1
34DAP/26DAP	1.01315	1
51DAP/34DAP	0.86845	0.197
52DAP/51DAP	1.04245	0.704
53DAP/52DAP	0.99611	0.99
55DAP/53DAP	1.03	0.885
57DAP/55DAP	0.94709	0.774
62DAP/57DAP	0.91256	0.466
68DAP/62DAP	0.7884	0.263
68DAP/14DAP	0.77472	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98622	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64151	0.213
Mature Green Tomato/Ripe Tomato	1.10901	0.523
Immature Eggplant/Mature Eggplant	2.41793	0.05
Ripe Pepper/Ripe Tomato	1.06732	1
Mature Eggplant/Ripe Tomato	0.60893	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04115	1
1-1-2/M82	1.05568	1
12-2/M82	1.02495	1
12-4/M82	0.97657	1
1-3/M82	0.94498	1
2-1-1/M82	1.04308	1
2-1/M82	1.10573	1
2-6/M82	1.06605	0.505
3-2/M82	0.90442
4-1-1/M82	1.14612	0.72
4-1/M82	0.98994
4-3-2/M82	0.87573	1
4-3/M82	1.09676	1
5-3/M82	1.04784	0.572
6-2/M82	0.99715	1
6-3/M82	0.94589	1
7-1/M82	1.17607	0.741
7-2/M82	1.05861	1
9-3-2/M82	0.88649	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9281	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.27434	0.362
IL12-4/WTpooled	1.09687	0.595
IL1-4/WTpooled	1.09194
WT/WTpooled	1.04464	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	1.21904	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97787	1
DC3000/delta hrp 6h	0.83866	0.95
DC3000/delta hrp 12h	1.13386	1
DC3000/delta hrp 24h	1.12096	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94907	0.803
DC3000 delta B/DC3000 delta AB	0.97703	0.826

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1561	1
Exp 36h	1.84079	0.371
Exp 60h	1.50237	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01957	1
Var 0h	0.71112	0.933
Var 12h I row2-row1	0.96191	0.948
Var 12h NI row2-row1	1.12131	1
Var 36h I row2-row1	1.07546	1
Var 36h NI row2-row1	0.84646	0.522
Var 60h I row2-row1	0.91842	0.582
Var 60h NI row2-row1	1.10203	0.904
Time course 0hI-0hNI	1.09174	0.63
Time course 12hI-12hNI	1.73259	0.005
Time course 36hI-36hNI	1.71123	0.005
Time course 60hI-60hNI	1.81267	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)	0.86264	0.529
transgenic ySAMdc/azygous control (breaker)	0.24393	0.131
transgenic ySAMdc/azygous control (red)	1.50925	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04337	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71589	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.5474	0.307
Manapal/WT (break)	0.97489	1
Manapal/WT (red)	0.75838	0.274