Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.11.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06765	0.755
27DAP/17DAP	1.13668	0.866
39DAP/27DAP	0.89385	0.549
41DAP/39DAP	1.16271	0.511
42DAP/41DAP	1.06358	1
43DAP/42DAP	1.00687	0.937
47DAP/43DAP	1.03862	0.979
52DAP/47DAP	1.10408	0.906
57DAP/52DAP	1.02394	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01077	1
17DAP/reference	1.05707	0.089
27DAP/reference	1.03815	0.529
39DAP/reference	1.05479	0.236
41DAP/reference	1.08018	0.102
42DAP/reference	0.95526	0.139
43DAP/reference	1.04265	0.34
47DAP/reference	0.96535	0.279
52DAP/reference	0.89977	0.202
57DAP/reference	0.92631	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97121	0.663
27DAP/17DAP	0.95542	0.821
39DAP/27DAP	1.07698	0.56
41DAP/39DAP	1.02392	0.909
42DAP/41DAP	0.99145	0.853
43DAP/42DAP	1.05205	0.176
47DAP/43DAP	1.00697	0.95
52DAP/47DAP	0.98763	0.93
57DAP/52DAP	0.92763	0.209
57DAP/7DAP	0.97105	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09584	0.223
17DAP/reference	1.04764	1
27DAP/reference	1.00323	1
39DAP/reference	1.03529	0.601
41DAP/reference	0.95755	0.375
42DAP/reference	0.89504	0.058
43DAP/reference	0.82839	0.023
47DAP/reference	0.91217	0.101
52DAP/reference	1.03027	0.832
57DAP/reference	0.9735	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04912	0.559
17DAP/reference	0.99869	0.83
27DAP/reference	0.82907	0.129
39DAP/reference	0.94252	0.404
41DAP/reference	0.81334	0.057
42DAP/reference	0.9078	0.169
43DAP/reference	1.01297	0.892
47DAP/reference	0.98741	0.5
52DAP/reference	0.91626	0.093
57DAP/reference	1.14216	0.057

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93777	0.29
17DAP/reference	1.02226	1
27DAP/reference	1.0005	0.883
39DAP/reference	0.92117	0.222
41DAP/reference	0.89147	0.293
42DAP/reference	1.34392	0.556
43DAP/reference	1.16318	1
47DAP/reference	0.88299	0.259
52DAP/reference	0.86619	0.223
57DAP/reference	0.5907	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98415	1
26DAP/20DAP	0.92498	0.512
34DAP/26DAP	1.00379	1
51DAP/34DAP	0.94362	0.579
52DAP/51DAP	1.01103	0.904
53DAP/52DAP	0.99854	1
55DAP/53DAP	1.03895	0.885
57DAP/55DAP	1.09772	0.947
62DAP/57DAP	0.97666	0.994
68DAP/62DAP	1.10529	0.8
68DAP/14DAP	0.87842	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91962	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.06108	0.898
Immature Eggplant/Mature Eggplant	1.06894	1
Ripe Pepper/Ripe Tomato	1.11138
Mature Eggplant/Ripe Tomato	0.95098	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04949
1-1-2/M82	1.01237	1
12-2/M82	0.93685	0.535
12-4/M82	0.88725	0.619
1-3/M82	0.81879	0.441
2-1-1/M82	N/A	N/A
2-1/M82	0.93233
2-6/M82	1.03195	1
3-2/M82	0.95695	1
4-1-1/M82	0.9904	1
4-1/M82	0.99826	1
4-3-2/M82	0.8936	1
4-3/M82	0.72273	0.46
5-3/M82	0.96717	1
6-2/M82	1.06007
6-3/M82	1.26277
7-1/M82	1.11696
7-2/M82	1.02957	1
9-3-2/M82	0.87906	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.2484	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.78492	1
IL12-4/WTpooled	1.00434	0.839
IL1-4/WTpooled	0.82648
WT/WTpooled	0.92508	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	1.08094	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99764	1
DC3000/delta hrp 6h	3.74188	0.777
DC3000/delta hrp 12h	0.99127	1
DC3000/delta hrp 24h	1.10056	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95642	0.568
DC3000 delta B/DC3000 delta AB	0.99449	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99505	1
Exp 36h	1.15189	1
Exp 60h	1.08611	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99386	1
Var 0h	0.89896	1
Var 12h I row2-row1	1.14319	0.235
Var 12h NI row2-row1	0.96364	0.713
Var 36h I row2-row1	1.02125	1
Var 36h NI row2-row1	0.92349	0.549
Var 60h I row2-row1	1.19341	1
Var 60h NI row2-row1	1.21596	0.904
Time course 0hI-0hNI	1.04574	0.852
Time course 12hI-12hNI	0.9801	0.814
Time course 36hI-36hNI	0.92063	0.132
Time course 60hI-60hNI	0.87613	0.081

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)	0.8854	0.314
transgenic ySAMdc/azygous control (breaker)	0.68861	0.173
transgenic ySAMdc/azygous control (red)	0.9601	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01928	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01749	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91571	1
Manapal/WT (break)	0.62568	0.333
Manapal/WT (red)	1.02329	1