Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.19.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10926	0.912
27DAP/17DAP	0.89453	0.746
39DAP/27DAP	0.99627	0.733
41DAP/39DAP	1.41531	0.758
42DAP/41DAP	0.8667	1
43DAP/42DAP	0.96782	0.906
47DAP/43DAP	0.88973	0.599
52DAP/47DAP	2.13664	0.341
57DAP/52DAP	0.92171	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03418	1
17DAP/reference	0.76968	0.02
27DAP/reference	0.73536	0.015
39DAP/reference	0.71025	0.032
41DAP/reference	0.52352	0.009
42DAP/reference	0.93649	0.103
43DAP/reference	0.8699	0.036
47DAP/reference	0.82285	0.006
52DAP/reference	0.94412	0.405
57DAP/reference	0.99143	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57724	0.045
27DAP/17DAP	1.17142	0.411
39DAP/27DAP	1.08515	0.685
41DAP/39DAP	0.94483	0.839
42DAP/41DAP	1.27369	0.015
43DAP/42DAP	1.7291	0.013
47DAP/43DAP	1.06567	0.735
52DAP/47DAP	0.64617	0.041
57DAP/52DAP	0.97482	0.776
57DAP/7DAP	0.84798	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89426	0.203
17DAP/reference	0.83679	0.019
27DAP/reference	0.90549	0.013
39DAP/reference	0.81874	0.011
41DAP/reference	0.70888	0.013
42DAP/reference	0.77666	0.012
43DAP/reference	0.74532	0.02
47DAP/reference	1.13304	0.311
52DAP/reference	0.73091	0.046
57DAP/reference	0.75088	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00001	0.884
17DAP/reference	0.73385	0.036
27DAP/reference	1.06328	0.726
39DAP/reference	0.96195	0.381
41DAP/reference	1.08126	0.548
42DAP/reference	1.03912	0.634
43DAP/reference	0.77223	0.102
47DAP/reference	0.73351	0.009
52DAP/reference	0.77873	0.005
57DAP/reference	0.57944	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79622	0.031
17DAP/reference	0.86539	0.186
27DAP/reference	0.79987	0.025
39DAP/reference	0.81951	0.008
41DAP/reference	0.93907	0.293
42DAP/reference	1.00468	0.994
43DAP/reference	1.03896	0.815
47DAP/reference	0.74737	0.045
52DAP/reference	0.76714	0.082
57DAP/reference	1.09521	0.56

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9451	1
26DAP/20DAP	0.81658	0.244
34DAP/26DAP	1.0347	1
51DAP/34DAP	1.25294	0.251
52DAP/51DAP	0.91293	1
53DAP/52DAP	0.90099	0.544
55DAP/53DAP	1.10786	0.653
57DAP/55DAP	0.81884	0.297
62DAP/57DAP	1.11846	0.902
68DAP/62DAP	1.71727	0.635
68DAP/14DAP	2.89985	0.033

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.12142	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.16597	0.113
Mature Green Tomato/Ripe Tomato	0.74891	0.165
Immature Eggplant/Mature Eggplant	1.00739	1
Ripe Pepper/Ripe Tomato	0.44066	0.293
Mature Eggplant/Ripe Tomato	0.42239	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04296	1
1-1-2/M82	0.91247	1
12-2/M82	1.28809
12-4/M82	1.05479	1
1-3/M82	0.8937	0.501
2-1-1/M82	1.11924
2-1/M82	N/A	N/A
2-6/M82	0.93578	1
3-2/M82	1.04942
4-1-1/M82	1.09794	1
4-1/M82	0.80129	1
4-3-2/M82	0.78329	0.487
4-3/M82	1.09755
5-3/M82	1.01025	1
6-2/M82	0.7905
6-3/M82	N/A	N/A
7-1/M82	1.03515
7-2/M82	1.05536
9-3-2/M82	1.0719

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.0524	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.77603
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.9908	1
IL1-4/WTpooled	0.87861	0.402
WT/WTpooled	1.00702	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	0.91016	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03245	0.921
DC3000/delta hrp 6h	0.99216	0.95
DC3000/delta hrp 12h	1.02586	1
DC3000/delta hrp 24h	1.12918	0.212

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61023	0.044
DC3000 delta B/DC3000 delta AB	0.72855	0.097

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00791	1
Exp 36h	0.81536	0.539
Exp 60h	0.96022	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.90794	1
Var 0h	0.90959	0.933
Var 12h I row2-row1	0.94559	0.856
Var 12h NI row2-row1	0.90203	0.443
Var 36h I row2-row1	0.90627	0.438
Var 36h NI row2-row1	1.21024	1
Var 60h I row2-row1	1.24805	1
Var 60h NI row2-row1	0.98	1
Time course 0hI-0hNI	1.03319	0.799
Time course 12hI-12hNI	0.99063	0.953
Time course 36hI-36hNI	0.85917	0.052
Time course 60hI-60hNI	0.55656	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)	0.96534	0.485
transgenic ySAMdc/azygous control (breaker)	0.89725	0.173
transgenic ySAMdc/azygous control (red)	0.92973	1

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	1.4938	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.33176	0.096
Manapal/WT (break)	1.06211	1
Manapal/WT (red)	0.95288	0.728