Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79352	0.2
27DAP/17DAP	0.94756	0.939
39DAP/27DAP	0.70098	0.41
41DAP/39DAP	1.51866	0.451
42DAP/41DAP	1.1107	1
43DAP/42DAP	0.96801	0.906
47DAP/43DAP	1.18916	0.733
52DAP/47DAP	0.93494	0.769
57DAP/52DAP	1.03785	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9511	0.326
17DAP/reference	1.02415	0.631
27DAP/reference	0.98634	0.711
39DAP/reference	1.014	0.816
41DAP/reference	1.04928	0.365
42DAP/reference	0.84457	0.043
43DAP/reference	1.01605	0.899
47DAP/reference	0.82208	0.001
52DAP/reference	0.83834	0.082
57DAP/reference	0.69326	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87125	0.245
27DAP/17DAP	0.99343	0.943
39DAP/27DAP	1.12978	0.403
41DAP/39DAP	1.08887	0.799
42DAP/41DAP	1.0015	0.882
43DAP/42DAP	1.06787	0.627
47DAP/43DAP	0.99397	0.961
52DAP/47DAP	1.01725	0.986
57DAP/52DAP	0.86788	0.266
57DAP/7DAP	1.09357	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90328	0.073
17DAP/reference	0.89167	0.011
27DAP/reference	0.89015	0.011
39DAP/reference	0.88823	0.011
41DAP/reference	0.87158	0.021
42DAP/reference	0.90137	0.055
43DAP/reference	0.90458	0.014
47DAP/reference	0.87578	0.101
52DAP/reference	0.87101	0.015
57DAP/reference	0.86125	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10044	0.304
17DAP/reference	1.02861	0.904
27DAP/reference	0.8321	0.1
39DAP/reference	0.81314	0.01
41DAP/reference	0.7392	0.021
42DAP/reference	0.75962	0.011
43DAP/reference	1.06225	0.688
47DAP/reference	0.80558	0.015
52DAP/reference	0.91944	0.131
57DAP/reference	1.12106	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92561	0.063
17DAP/reference	0.98655	0.709
27DAP/reference	0.89544	0.024
39DAP/reference	0.90307	0.021
41DAP/reference	0.89016	0.025
42DAP/reference	0.80024	0.172
43DAP/reference	0.79376	0.131
47DAP/reference	0.91147	0.286
52DAP/reference	0.81321	0.069
57DAP/reference	0.46961	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07333	0.966
26DAP/20DAP	0.98838	1
34DAP/26DAP	1.03085	1
51DAP/34DAP	1.08267	0.597
52DAP/51DAP	0.87656	0.151
53DAP/52DAP	1.03962	0.921
55DAP/53DAP	0.95749	0.796
57DAP/55DAP	0.95821	0.799
62DAP/57DAP	1.29634	0.185
68DAP/62DAP	0.75497	0.062
68DAP/14DAP	0.77751	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85599	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86153	0.287
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	1.02712	0.591
1-1-2/M82	0.79627	0.958
12-2/M82	1.38703	1
12-4/M82	0.96325	1
1-3/M82	0.86821	0.501
2-1-1/M82	1.15257
2-1/M82	N/A	N/A
2-6/M82	1.03012	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.00561	1
4-1/M82	N/A	N/A
4-3-2/M82	0.84366
4-3/M82	0.84498	1
5-3/M82	1.01539	1
6-2/M82	0.9241	1
6-3/M82	0.97939	1
7-1/M82	N/A	N/A
7-2/M82	1.07874	1
9-3-2/M82	0.8787

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03683	0.493
IL2-6/WTpooled	0.98437	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.99801	1
IL12-4/WTpooled	0.94666	1
IL1-4/WTpooled	0.81663	0.834
WT/WTpooled	0.98669	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	0.86581	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91997	0.697
DC3000/delta hrp 6h	1.21732	1
DC3000/delta hrp 12h	1.07716	1
DC3000/delta hrp 24h	0.92106	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10746	0.29
DC3000 delta B/DC3000 delta AB	0.97774	0.873

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02289	1
Exp 36h	1.03255	1
Exp 60h	0.74448	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91342	1
Var 0h	1.26843	0.594
Var 12h I row2-row1	1.04169	0.692
Var 12h NI row2-row1	0.77136	0.546
Var 36h I row2-row1	1.20894	0.908
Var 36h NI row2-row1	1.21401	1
Var 60h I row2-row1	1.15564	0.543
Var 60h NI row2-row1	1.38197	0.904
Time course 0hI-0hNI	0.93094	0.586
Time course 12hI-12hNI	0.67341	0.082
Time course 36hI-36hNI	0.69941	0.023
Time course 60hI-60hNI	0.35649	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)	0.92714	0.362
transgenic ySAMdc/azygous control (breaker)	1.12546	0.248
transgenic ySAMdc/azygous control (red)	0.94535	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04036	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33702	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.857	1
Manapal/WT (break)	1.13167	1
Manapal/WT (red)	0.93247	0.607