Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.15.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31392	0.477
27DAP/17DAP	1.4208	0.646
39DAP/27DAP	0.85947	0.529
41DAP/39DAP	0.89714	0.615
42DAP/41DAP	0.87049	1
43DAP/42DAP	1.38267	0.52
47DAP/43DAP	0.83018	0.467
52DAP/47DAP	1.42805	0.425
57DAP/52DAP	1.07233	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31531	0.068
17DAP/reference	0.94282	0.368
27DAP/reference	1.4099	0.032
39DAP/reference	1.22275	0.386
41DAP/reference	1.03123	1
42DAP/reference	2.28833	0.001
43DAP/reference	1.65489	0.007
47DAP/reference	2.18237	0.001
52DAP/reference	2.35742	0.007
57DAP/reference	2.20696	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96682	0.595
27DAP/17DAP	1.15212	0.411
39DAP/27DAP	1.13358	0.32
41DAP/39DAP	0.99704	1
42DAP/41DAP	1.14242	0.208
43DAP/42DAP	0.87996	0.116
47DAP/43DAP	1.04113	0.889
52DAP/47DAP	1.11422	0.8
57DAP/52DAP	1.09562	0.638
57DAP/7DAP	0.67996	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.64788	0.04
17DAP/reference	1.08638	0.112
27DAP/reference	0.86475	0.019
39DAP/reference	0.97148	0.474
41DAP/reference	0.911	0.16
42DAP/reference	0.84829	0.086
43DAP/reference	0.77187	0.016
47DAP/reference	1.4166	0.324
52DAP/reference	0.70081	0.012
57DAP/reference	0.80656	0.064

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90528	0.353
17DAP/reference	0.88377	0.245
27DAP/reference	1.45717	0.059
39DAP/reference	1.87869	0.011
41DAP/reference	1.66287	0.022
42DAP/reference	1.79918	0.008
43DAP/reference	1.18497	0.899
47DAP/reference	1.50311	0.011
52DAP/reference	1.42705	0.007
57DAP/reference	1.16935	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.53915	0.015
17DAP/reference	0.95283	0.571
27DAP/reference	0.93499	0.286
39DAP/reference	1.09029	0.613
41DAP/reference	0.9099	0.293
42DAP/reference	1.0644	0.816
43DAP/reference	1.39035	0.285
47DAP/reference	2.16351	0.005
52DAP/reference	1.08617	0.704
57DAP/reference	2.89827	0.052

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84453	0.89
26DAP/20DAP	1.17547	0.77
34DAP/26DAP	1.2912	0.542
51DAP/34DAP	1.46744	0.377
52DAP/51DAP	1.34127	0.202
53DAP/52DAP	1.14385	0.83
55DAP/53DAP	0.87644	0.445
57DAP/55DAP	0.77735	0.159
62DAP/57DAP	0.75652	0.088
68DAP/62DAP	2.75623	0.11
68DAP/14DAP	5.17694	0.028

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15933	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.61175	0.058
Mature Green Tomato/Ripe Tomato	1.55256	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92983
1-1-2/M82	0.98867	1
12-2/M82	N/A	N/A
12-4/M82	1.00532	1
1-3/M82	1.01057
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.23097	0.425
3-2/M82	1.15577
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.04156	1
5-3/M82	0.89
6-2/M82	N/A	N/A
6-3/M82	1.08779
7-1/M82	N/A	N/A
7-2/M82	1.06833
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1943	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.6193	1
IL12-4/WTpooled	0.93259	1
IL1-4/WTpooled	0.98633	1
WT/WTpooled	1.05203	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	0.79867	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95075	1
DC3000/delta hrp 6h	0.13154
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.88961	0.22

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.84913	0.196
DC3000 delta B/DC3000 delta AB	1.01379	0.761

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	2.37533	1
Exp 36h	9.66839	1
Exp 60h	3.31381	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99339	1
Var 0h	1.31985	0.936
Var 12h I row2-row1	1.07227	0.795
Var 12h NI row2-row1	1.14102	0.649
Var 36h I row2-row1	0.84321	1
Var 36h NI row2-row1	1.59244	1
Var 60h I row2-row1	1.00939	1
Var 60h NI row2-row1	1.27208	0.904
Time course 0hI-0hNI	0.91754	0.404
Time course 12hI-12hNI	0.92531	0.247
Time course 36hI-36hNI	0.74285	0.023
Time course 60hI-60hNI	0.38534	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)	1.09609	0.798
transgenic ySAMdc/azygous control (breaker)	0.87776	0.251
transgenic ySAMdc/azygous control (red)	1.15424	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06221	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10517	1
Manapal/WT (break)	1.35745	0.381
Manapal/WT (red)	0.90362	0.607