Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96723	0.76
27DAP/17DAP	1.08042	1
39DAP/27DAP	0.83516	0.458
41DAP/39DAP	1.43695	0.222
42DAP/41DAP	1.15168	0.941
43DAP/42DAP	0.98437	0.91
47DAP/43DAP	1.00529	0.959
52DAP/47DAP	1.38236	0.388
57DAP/52DAP	0.92804	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98618	0.63
17DAP/reference	1.04827	0.068
27DAP/reference	0.96174	0.385
39DAP/reference	1.00934	0.842
41DAP/reference	1.01243	0.552
42DAP/reference	0.95152	0.099
43DAP/reference	1.02727	0.569
47DAP/reference	0.91405	0.006
52DAP/reference	0.76262	0.086
57DAP/reference	0.8406	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96318	0.644
27DAP/17DAP	1.00615	1
39DAP/27DAP	1.0987	0.492
41DAP/39DAP	1.0993	0.887
42DAP/41DAP	1.08349	0.719
43DAP/42DAP	1.03787	0.746
47DAP/43DAP	1.08707	0.798
52DAP/47DAP	1.0648	0.789
57DAP/52DAP	0.9581	0.466
57DAP/7DAP	1.18117	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84706	0.095
17DAP/reference	0.77495	0.011
27DAP/reference	0.77557	0.011
39DAP/reference	0.91079	0.23
41DAP/reference	0.91548	0.153
42DAP/reference	0.7949	0.06
43DAP/reference	0.8484	0.054
47DAP/reference	0.84157	0.128
52DAP/reference	1.01487	0.74
57DAP/reference	0.86182	0.09

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03076	0.926
17DAP/reference	0.98175	0.611
27DAP/reference	0.87868	0.16
39DAP/reference	0.8459	0.097
41DAP/reference	0.85357	0.089
42DAP/reference	0.85606	0.055
43DAP/reference	0.97614	0.607
47DAP/reference	0.98944	0.574
52DAP/reference	0.94394	0.143
57DAP/reference	1.10979	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80706	0.044
17DAP/reference	1.19474	0.814
27DAP/reference	0.70019	0.036
39DAP/reference	0.8447	0.222
41DAP/reference	0.77456	0.033
42DAP/reference	0.84743	0.22
43DAP/reference	0.75833	0.116
47DAP/reference	0.78949	0.24
52DAP/reference	0.70178	0.111
57DAP/reference	0.35024	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92793	1
26DAP/20DAP	0.90626	0.512
34DAP/26DAP	1.06039	1
51DAP/34DAP	0.99358	0.917
52DAP/51DAP	0.91732	1
53DAP/52DAP	1.16146	0.171
55DAP/53DAP	1.00994	0.939
57DAP/55DAP	0.98809	0.923
62DAP/57DAP	0.98302	0.994
68DAP/62DAP	0.92362	0.7
68DAP/14DAP	0.95911	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03743	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.89121	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	26.9185
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91139	0.944
1-1-2/M82	0.92377	0.754
12-2/M82	1.11628
12-4/M82	0.93391	1
1-3/M82	0.7526	0.378
2-1-1/M82	0.96428	1
2-1/M82	N/A	N/A
2-6/M82	1.17634	0.594
3-2/M82	N/A	N/A
4-1-1/M82	1.14036	1
4-1/M82	1.81767	1
4-3-2/M82	0.82734	0.487
4-3/M82	0.88649	0.72
5-3/M82	0.91688	1
6-2/M82	N/A	N/A
6-3/M82	0.95001	1
7-1/M82	N/A	N/A
7-2/M82	1.01751	1
9-3-2/M82	0.80069	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.54944	0.277
IL2-6/WTpooled	0.50952	0.348
IL7-5/WTpooled	1.10321	0.792
IL7-3/WTpooled	1.41123	0.362
IL12-4/WTpooled	1.30093	0.538
IL1-4/WTpooled	0.87652	0.699
WT/WTpooled	0.99446	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	0.93213	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96075	1
DC3000/delta hrp 6h	0.96337	0.95
DC3000/delta hrp 12h	1.12969	1
DC3000/delta hrp 24h	1.07329	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11397	0.27
DC3000 delta B/DC3000 delta AB	1.02346	0.665

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99361	1
Exp 36h	1.47863	0.693
Exp 60h	1.55269	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01484	1
Var 0h	0.86673	1
Var 12h I row2-row1	1.8333	0.379
Var 12h NI row2-row1	0.97275	0.906
Var 36h I row2-row1	1.03253	1
Var 36h NI row2-row1	0.92377	0.645
Var 60h I row2-row1	1.30217	0.562
Var 60h NI row2-row1	1.19729	0.904
Time course 0hI-0hNI	1.06642	0.852
Time course 12hI-12hNI	1.18998	0.102
Time course 36hI-36hNI	1.10442	0.063
Time course 60hI-60hNI	1.26526	0.009

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)	0.97645	0.789
transgenic ySAMdc/azygous control (breaker)	1.04373	1
transgenic ySAMdc/azygous control (red)	1.20357	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99805	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10875	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98036	1
Manapal/WT (break)	0.87123	1
Manapal/WT (red)	N/A	N/A