Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.18.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13665	0.477
27DAP/17DAP	1.18887	0.847
39DAP/27DAP	0.99693	0.782
41DAP/39DAP	1.10935	0.522
42DAP/41DAP	1.01586	1
43DAP/42DAP	1.04121	0.937
47DAP/43DAP	1.20258	0.513
52DAP/47DAP	0.84418	0.602
57DAP/52DAP	1.05765	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96403	0.371
17DAP/reference	1.04732	0.154
27DAP/reference	0.98703	0.668
39DAP/reference	1.03593	0.486
41DAP/reference	1.01865	1
42DAP/reference	0.98275	0.305
43DAP/reference	0.99118	0.805
47DAP/reference	0.95827	0.05
52DAP/reference	0.9781	0.475
57DAP/reference	0.98781	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97828	0.679
27DAP/17DAP	0.98015	0.748
39DAP/27DAP	1.04598	0.603
41DAP/39DAP	1.04252	0.753
42DAP/41DAP	0.97068	0.695
43DAP/42DAP	1.0091	0.83
47DAP/43DAP	1.00255	0.973
52DAP/47DAP	0.98749	0.925
57DAP/52DAP	0.97871	0.632
57DAP/7DAP	0.98064	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25837	0.088
17DAP/reference	0.98385	0.518
27DAP/reference	1.09959	0.246
39DAP/reference	1.44913	0.025
41DAP/reference	1.48557	0.027
42DAP/reference	1.36542	0.046
43DAP/reference	1.27044	0.14
47DAP/reference	1.22539	0.791
52DAP/reference	1.2454	0.013
57DAP/reference	1.60844	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04019	0.634
17DAP/reference	0.93083	0.129
27DAP/reference	0.91922	0.22
39DAP/reference	0.85397	0.022
41DAP/reference	0.91875	0.183
42DAP/reference	0.87799	0.061
43DAP/reference	0.87414	0.263
47DAP/reference	0.9931	0.66
52DAP/reference	0.9193	0.004
57DAP/reference	0.97395	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07379	0.32
17DAP/reference	1.05727	0.551
27DAP/reference	0.95082	0.27
39DAP/reference	1.11391	0.134
41DAP/reference	1.08619	0.692
42DAP/reference	1.02528	1
43DAP/reference	1.07958	0.721
47DAP/reference	0.94599	0.199
52DAP/reference	1.14511	0.398
57DAP/reference	1.19222	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05087	0.966
26DAP/20DAP	0.97796	1
34DAP/26DAP	1.09208	0.819
51DAP/34DAP	0.9652	0.737
52DAP/51DAP	0.94371	0.151
53DAP/52DAP	1.02302	0.882
55DAP/53DAP	1.07039	0.537
57DAP/55DAP	1.09866	0.935
62DAP/57DAP	0.87511	0.466
68DAP/62DAP	1.11268	0.878
68DAP/14DAP	0.8452	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92924	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86519
Mature Green Tomato/Ripe Tomato	0.8726	0.287
Immature Eggplant/Mature Eggplant	1.09491	0.683
Ripe Pepper/Ripe Tomato	0.55094	0.293
Mature Eggplant/Ripe Tomato	0.40489	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98983	1
1-1-2/M82	1.01081	1
12-2/M82	0.99468	1
12-4/M82	1.02683	1
1-3/M82	1.02585	1
2-1-1/M82	1.03203	1
2-1/M82	1.32471	1
2-6/M82	0.98399	1
3-2/M82	1.03296	0.426
4-1-1/M82	1.05496	0.977
4-1/M82	1.00868	1
4-3-2/M82	0.98082	1
4-3/M82	0.89453	0.72
5-3/M82	0.99203	1
6-2/M82	1.03176	1
6-3/M82	0.99375	1
7-1/M82	0.87138	0.509
7-2/M82	0.99347	1
9-3-2/M82	1.12631	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.80869
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.20977	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83762	0.664
DC3000/delta hrp 6h	1.19578	1
DC3000/delta hrp 12h	1.05966	1
DC3000/delta hrp 24h	1.05341	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05193	0.313
DC3000 delta B/DC3000 delta AB	1.03552	0.571

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17211	0.228
Exp 36h	1.40548	0.693
Exp 60h	1.65592	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01243	1
Var 0h	1.13037	1
Var 12h I row2-row1	1.04242	0.544
Var 12h NI row2-row1	0.95945	0.713
Var 36h I row2-row1	1.02696	1
Var 36h NI row2-row1	0.98639	0.852
Var 60h I row2-row1	1.01711	1
Var 60h NI row2-row1	0.92798	0.483
Time course 0hI-0hNI	1.06931	0.799
Time course 12hI-12hNI	1.04599	0.693
Time course 36hI-36hNI	1.1336	0.063
Time course 60hI-60hNI	1.37689	0.015

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)	0.87697	0.428
transgenic ySAMdc/azygous control (breaker)	0.80949	0.173
transgenic ySAMdc/azygous control (red)	1.11214	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97358	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12864	0.277

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)	0.50871	0.333
Manapal/WT (red)	0.30627	0.181