Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97004	0.779
27DAP/17DAP	0.9315	0.892
39DAP/27DAP	0.91471	0.549
41DAP/39DAP	1.11216	0.78
42DAP/41DAP	1.00981	1
43DAP/42DAP	0.97141	0.912
47DAP/43DAP	0.93524	0.705
52DAP/47DAP	1.18281	0.76
57DAP/52DAP	0.95682	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20543	0.043
17DAP/reference	1.0451	0.258
27DAP/reference	1.03029	0.559
39DAP/reference	1.05708	0.021
41DAP/reference	1.03873	0.91
42DAP/reference	0.97264	0.103
43DAP/reference	1.01395	0.899
47DAP/reference	1.03028	0.752
52DAP/reference	0.97945	0.598
57DAP/reference	0.93969	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00327	1
27DAP/17DAP	1.00946	0.969
39DAP/27DAP	1.07851	0.636
41DAP/39DAP	1.03469	0.763
42DAP/41DAP	1.00394	1
43DAP/42DAP	0.99054	0.928
47DAP/43DAP	1.03307	0.857
52DAP/47DAP	1.02498	0.907
57DAP/52DAP	0.99366	0.848
57DAP/7DAP	1.0141	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0241	0.843
17DAP/reference	0.95536	0.094
27DAP/reference	0.91672	0.048
39DAP/reference	1.04856	0.141
41DAP/reference	1.03732	0.35
42DAP/reference	0.98652	0.506
43DAP/reference	0.96697	0.292
47DAP/reference	1.04087	0.659
52DAP/reference	1.03321	0.401
57DAP/reference	1.18751	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06299	0.114
17DAP/reference	1.05284	0.348
27DAP/reference	1.01672	1
39DAP/reference	1.03393	0.705
41DAP/reference	0.92531	0.038
42DAP/reference	0.95225	0.15
43DAP/reference	0.99426	0.774
47DAP/reference	1.05227	0.247
52DAP/reference	0.96178	0.203
57DAP/reference	1.0681	0.146

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91513	0.158
17DAP/reference	0.96835	0.579
27DAP/reference	0.99635	0.763
39DAP/reference	0.91733	0.008
41DAP/reference	0.97625	0.167
42DAP/reference	0.86614	0.017
43DAP/reference	0.9676	0.281
47DAP/reference	0.98685	0.538
52DAP/reference	1.02608	0.876
57DAP/reference	0.87184	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98661	1
26DAP/20DAP	0.9651	1
34DAP/26DAP	1.07475	0.542
51DAP/34DAP	1.06764	0.677
52DAP/51DAP	1.00482	0.954
53DAP/52DAP	1.03565	0.901
55DAP/53DAP	0.94197	0.5
57DAP/55DAP	1.0393	0.543
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.83223	0.378
68DAP/14DAP	0.97745	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11632	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96492	0.71
Mature Green Tomato/Ripe Tomato	1.06756	0.69
Immature Eggplant/Mature Eggplant	1.13823	0.259
Ripe Pepper/Ripe Tomato	0.66663	0.224
Mature Eggplant/Ripe Tomato	0.16142	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91734	0.651
1-1-2/M82	1.0572	1
12-2/M82	1.13845	1
12-4/M82	0.9847	1
1-3/M82	0.97367	1
2-1-1/M82	1.01889	1
2-1/M82	1.20809	1
2-6/M82	0.96845	1
3-2/M82	0.94271	1
4-1-1/M82	0.99324	1
4-1/M82	0.78789	0.737
4-3-2/M82	1.00428	1
4-3/M82	0.9524	0.72
5-3/M82	1.01985	1
6-2/M82	0.96473	0.497
6-3/M82	1.15974	1
7-1/M82	0.97541	0.509
7-2/M82	1.1012	1
9-3-2/M82	0.90058	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01538	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85042	0.418
IL12-4/WTpooled	1.08432	0.532
IL1-4/WTpooled	0.94445
WT/WTpooled	1.00231	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	1.04587	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00377	1
DC3000/delta hrp 6h	0.99177	0.95
DC3000/delta hrp 12h	0.98782	1
DC3000/delta hrp 24h	1.06928	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12376	0.053
DC3000 delta B/DC3000 delta AB	1.16664	0.208

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89717	1
Exp 36h	1.26751	0.693
Exp 60h	1.07643	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96304	1
Var 0h	1.10708	0.339
Var 12h I row2-row1	1.08772	0.613
Var 12h NI row2-row1	1.09918	1
Var 36h I row2-row1	0.9435	1
Var 36h NI row2-row1	0.8458	0.469
Var 60h I row2-row1	1.19569	1
Var 60h NI row2-row1	1.00656	1
Time course 0hI-0hNI	0.97366	0.881
Time course 12hI-12hNI	1.0205	0.798
Time course 36hI-36hNI	1.09424	0.147
Time course 60hI-60hNI	1.15488	0.022

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)	0.85569	0.297
transgenic ySAMdc/azygous control (breaker)	1.67217	0.178
transgenic ySAMdc/azygous control (red)	1.12555	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03966	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9401	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.67369	0.172
Manapal/WT (break)	1.08765	1
Manapal/WT (red)	1.12418	0.222