Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.11.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11342	0.602
27DAP/17DAP	1.14812	0.839
39DAP/27DAP	0.89319	0.573
41DAP/39DAP	0.94879	0.802
42DAP/41DAP	1.1357	0.772
43DAP/42DAP	0.9747	0.912
47DAP/43DAP	0.93114	0.746
52DAP/47DAP	1.01325	0.989
57DAP/52DAP	0.86885	0.678

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05714	0.48
17DAP/reference	1.0797	0.108
27DAP/reference	0.94327	0.349
39DAP/reference	1.04331	0.465
41DAP/reference	1.12684	0.102
42DAP/reference	1.01939	0.869
43DAP/reference	1.1106	0.083
47DAP/reference	0.93791	0.224
52DAP/reference	0.74234	0.036
57DAP/reference	0.85923	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96039	0.629
27DAP/17DAP	1.0519	0.928
39DAP/27DAP	1.04122	0.663
41DAP/39DAP	1.14578	0.705
42DAP/41DAP	0.97888	0.77
43DAP/42DAP	1.02099	0.746
47DAP/43DAP	1.0223	0.884
52DAP/47DAP	0.95221	0.729
57DAP/52DAP	1.03856	0.832
57DAP/7DAP	1.28701	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07478	0.385
17DAP/reference	1.1777	0.006
27DAP/reference	1.1507	0.01
39DAP/reference	1.32499	0.007
41DAP/reference	1.30636	0.011
42DAP/reference	1.35513	0.011
43DAP/reference	1.44305	0.008
47DAP/reference	1.14336	0.604
52DAP/reference	1.23745	0.031
57DAP/reference	1.37312	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08848	0.545
17DAP/reference	1.1216	0.285
27DAP/reference	0.93044	0.34
39DAP/reference	0.86914	0.156
41DAP/reference	0.90619	0.177
42DAP/reference	1.05272	0.794
43DAP/reference	1.19089	0.641
47DAP/reference	1.12388	0.169
52DAP/reference	1.11685	0.036
57DAP/reference	1.64764	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09762	0.224
17DAP/reference	1.09891	0.354
27DAP/reference	1.17858	0.149
39DAP/reference	1.17104	0.022
41DAP/reference	1.18892	0.01
42DAP/reference	1.08692	0.961
43DAP/reference	1.10675	0.7
47DAP/reference	1.02517	1
52DAP/reference	1.35314	0.212
57DAP/reference	0.80754	0.134

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90749	0.981
26DAP/20DAP	0.97146	1
34DAP/26DAP	0.99463	1
51DAP/34DAP	0.88071	0.246
52DAP/51DAP	0.95329	1
53DAP/52DAP	1.0895	0.643
55DAP/53DAP	1.04296	0.782
57DAP/55DAP	1.65749	0.764
62DAP/57DAP	1.15918	0.35
68DAP/62DAP	0.68687	0.065
68DAP/14DAP	0.58701	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01922	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.96332	0.611
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.31571
Mature Eggplant/Ripe Tomato	0.52455	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97214	0.944
1-1-2/M82	0.88215	1
12-2/M82	1.12232	1
12-4/M82	1.00146	1
1-3/M82	0.89313	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.17252	0.345
2-6/M82	1.00751	1
3-2/M82	0.98077	1
4-1-1/M82	1.11982	1
4-1/M82	0.66611	1
4-3-2/M82	0.93308	0.445
4-3/M82	0.90637	0.475
5-3/M82	0.99212	1
6-2/M82	0.92555	1
6-3/M82	0.95117	1
7-1/M82	0.76143
7-2/M82	0.93027	0.796
9-3-2/M82	0.93303	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96418	1
IL2-6/WTpooled	1.01633	1
IL7-5/WTpooled	0.86643	0.559
IL7-3/WTpooled	0.94031	0.418
IL12-4/WTpooled	1.06592	0.646
IL1-4/WTpooled	1.04627	1
WT/WTpooled	0.95599	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	1.10529	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99932	1
DC3000/delta hrp 6h	1.05544	1
DC3000/delta hrp 12h	1.20511	1
DC3000/delta hrp 24h	1.07498	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05461
DC3000 delta B/DC3000 delta AB	1.02893	0.593

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.2439	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04774	1
Var 0h	0.48247	1
Var 12h I row2-row1	1.05964	0.544
Var 12h NI row2-row1	0.85737	0.627
Var 36h I row2-row1	0.88606	0.575
Var 36h NI row2-row1	0.97199	0.706
Var 60h I row2-row1	1.27342	0.562
Var 60h NI row2-row1	1.28052	0.904
Time course 0hI-0hNI	1.14624	0.537
Time course 12hI-12hNI	1.01032	0.88
Time course 36hI-36hNI	1.05936	0.218
Time course 60hI-60hNI	1.26499	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)	0.94451	0.377
transgenic ySAMdc/azygous control (breaker)	0.92051	0.251
transgenic ySAMdc/azygous control (red)	1.01619	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04276	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27252	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93603	1
Manapal/WT (break)	1.08039	1
Manapal/WT (red)	0.90771	0.424