Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1434	0.602
27DAP/17DAP	1.32277	0.732
39DAP/27DAP	1.45712	0.693
41DAP/39DAP	1.1024	0.722
42DAP/41DAP	0.84053	0.774
43DAP/42DAP	1.0182	0.937
47DAP/43DAP	0.99481	0.953
52DAP/47DAP	1.32927	0.869
57DAP/52DAP	1.15015	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94219	0.224
17DAP/reference	0.93373	0.111
27DAP/reference	1.05085	0.672
39DAP/reference	1.0541	0.249
41DAP/reference	0.99923	1
42DAP/reference	0.9986	0.547
43DAP/reference	0.97987	0.708
47DAP/reference	0.95611	0.258
52DAP/reference	1.29278	0.035
57DAP/reference	1.54152	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04381	0.826
27DAP/17DAP	1.06225	0.859
39DAP/27DAP	0.9852	0.925
41DAP/39DAP	0.98257	0.997
42DAP/41DAP	1.0461	0.991
43DAP/42DAP	1.0375	0.585
47DAP/43DAP	1.05851	0.827
52DAP/47DAP	0.92116	0.565
57DAP/52DAP	0.97427	0.726
57DAP/7DAP	0.81759	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9255	0.146
17DAP/reference	0.88995	0.082
27DAP/reference	0.92424	0.125
39DAP/reference	0.85996	0.095
41DAP/reference	0.95633	0.357
42DAP/reference	0.97311	0.458
43DAP/reference	0.95101	0.23
47DAP/reference	0.96111	0.504
52DAP/reference	0.83571	0.026
57DAP/reference	1.29981	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04063	0.842
17DAP/reference	0.86831	0.059
27DAP/reference	0.89954	0.155
39DAP/reference	0.89993	0.159
41DAP/reference	0.92635	0.237
42DAP/reference	0.91238	0.121
43DAP/reference	0.89893	0.229
47DAP/reference	0.88515	0.102
52DAP/reference	0.97135	0.469
57DAP/reference	0.91487	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88954	0.044
17DAP/reference	0.93549	0.342
27DAP/reference	0.84715	0.067
39DAP/reference	0.82041	0.037
41DAP/reference	0.93171	0.119
42DAP/reference	0.88839	0.071
43DAP/reference	0.86696	0.054
47DAP/reference	0.9443	0.306
52DAP/reference	0.95394	0.562
57DAP/reference	1.27812	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15434	0.24
26DAP/20DAP	0.98981	1
34DAP/26DAP	1.12735	1
51DAP/34DAP	1.14297	0.581
52DAP/51DAP	0.91932	1
53DAP/52DAP	1.06007	0.697
55DAP/53DAP	0.95709	0.735
57DAP/55DAP	1.21375	0.543
62DAP/57DAP	1.45281	0.833
68DAP/62DAP	0.99917	0.914
68DAP/14DAP	0.9719	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.59494	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.45443	0.089
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.8437	0.079
Ripe Pepper/Ripe Tomato	0.60781	0.224
Mature Eggplant/Ripe Tomato	2.10054	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97826	0.961
1-1-2/M82	N/A	N/A
12-2/M82	0.97143
12-4/M82	1.16554
1-3/M82	0.76023
2-1-1/M82	1.13931
2-1/M82	N/A	N/A
2-6/M82	0.96977
3-2/M82	N/A	N/A
4-1-1/M82	1.0934	1
4-1/M82	0.99001
4-3-2/M82	N/A	N/A
4-3/M82	0.70169	0.404
5-3/M82	0.96839	1
6-2/M82	0.7694
6-3/M82	1.10826
7-1/M82	N/A	N/A
7-2/M82	0.97852
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.015	0.493
IL2-6/WTpooled	0.9939	1
IL7-5/WTpooled	0.93193	1
IL7-3/WTpooled	0.99904	1
IL12-4/WTpooled	0.95418	1
IL1-4/WTpooled	0.84966	0.562
WT/WTpooled	0.99794	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	0.99045	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94353	0.868
DC3000/delta hrp 6h	1.01461	0.95
DC3000/delta hrp 12h	1.23089	1
DC3000/delta hrp 24h	1.20002	0.129

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76826
DC3000 delta B/DC3000 delta AB	1.43483	0.386

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00332	1
Exp 36h	1.0841	1
Exp 60h	0.97747	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.001	1
Var 0h	1.04274	1
Var 12h I row2-row1	1.0766	0.544
Var 12h NI row2-row1	0.83034	0.488
Var 36h I row2-row1	0.93397	1
Var 36h NI row2-row1	0.9821	0.852
Var 60h I row2-row1	1.01722	1
Var 60h NI row2-row1	1.07907	1
Time course 0hI-0hNI	0.99904	1
Time course 12hI-12hNI	1.06581	0.373
Time course 36hI-36hNI	1.08583	0.19
Time course 60hI-60hNI	1.54635	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)	1.02206	0.863
transgenic ySAMdc/azygous control (breaker)	0.75205	0.139
transgenic ySAMdc/azygous control (red)	1.0298	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0021	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7685	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.81163	0.242