Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71487	0.066
27DAP/17DAP	0.7365	0.172
39DAP/27DAP	0.8259	0.399
41DAP/39DAP	1.23729	0.569
42DAP/41DAP	1.07771	0.978
43DAP/42DAP	0.96152	0.888
47DAP/43DAP	0.86096	0.599
52DAP/47DAP	1.30765	0.534
57DAP/52DAP	0.95373	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16515	0.037
17DAP/reference	1.03572	0.248
27DAP/reference	0.9719	0.275
39DAP/reference	0.96829	0.391
41DAP/reference	0.94134	0.201
42DAP/reference	0.92515	0.027
43DAP/reference	1.03262	0.445
47DAP/reference	0.88343	0.018
52DAP/reference	0.97317	0.275
57DAP/reference	0.87747	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93615	0.35
27DAP/17DAP	0.9664	0.724
39DAP/27DAP	0.92889	0.344
41DAP/39DAP	0.94403	0.729
42DAP/41DAP	1.02033	0.927
43DAP/42DAP	1.06781	0.554
47DAP/43DAP	0.99972	1
52DAP/47DAP	0.95524	0.77
57DAP/52DAP	0.96756	0.572
57DAP/7DAP	1.03302	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05798	0.65
17DAP/reference	0.95816	0.22
27DAP/reference	0.88657	0.01
39DAP/reference	0.9173	0.011
41DAP/reference	0.88822	0.034
42DAP/reference	0.95548	0.026
43DAP/reference	0.91372	0.017
47DAP/reference	0.92853	0.05
52DAP/reference	0.92678	0.031
57DAP/reference	0.94793	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12345	0.203
17DAP/reference	1.08437	0.294
27DAP/reference	1.05026	0.735
39DAP/reference	0.96019	0.314
41DAP/reference	0.96198	0.096
42DAP/reference	0.96292	0.321
43DAP/reference	1.00996	0.969
47DAP/reference	0.88348	0.026
52DAP/reference	0.93873	0.015
57DAP/reference	0.99929	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09921	0.079
17DAP/reference	1.11598	0.189
27DAP/reference	1.05552	0.408
39DAP/reference	1.09444	0.072
41DAP/reference	0.93695	0.107
42DAP/reference	0.95314	0.134
43DAP/reference	0.95364	0.188
47DAP/reference	1.17938	0.057
52DAP/reference	0.97651	0.69
57DAP/reference	0.90615	0.089

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06874	0.786
26DAP/20DAP	0.87873	0.317
34DAP/26DAP	0.96595	0.988
51DAP/34DAP	1.04351	0.775
52DAP/51DAP	0.99265	1
53DAP/52DAP	0.9719	0.824
55DAP/53DAP	1.00685	0.964
57DAP/55DAP	1.01388	0.968
62DAP/57DAP	1.25988	0.034
68DAP/62DAP	1.02824	0.939
68DAP/14DAP	1.02817	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91321	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83604	0.29
Mature Green Tomato/Ripe Tomato	2.39178	0.018
Immature Eggplant/Mature Eggplant	0.59087	0.063
Ripe Pepper/Ripe Tomato	4.22867	0.256
Mature Eggplant/Ripe Tomato	2.95791	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01322	1
1-1-2/M82	0.91629	1
12-2/M82	1.03325	1
12-4/M82	0.9574	1
1-3/M82	0.91794	0.378
2-1-1/M82	0.8442	0.565
2-1/M82	0.48646	0.519
2-6/M82	1.02641	1
3-2/M82	N/A	N/A
4-1-1/M82	0.8826	1
4-1/M82	0.89943
4-3-2/M82	1.2007
4-3/M82	1.09157	1
5-3/M82	0.90528	1
6-2/M82	1.02971	1
6-3/M82	0.99536	1
7-1/M82	0.97696	1
7-2/M82	1.07775	1
9-3-2/M82	1.22458

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.98627	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95925	1
IL12-4/WTpooled	0.62404	0.71
IL1-4/WTpooled	1.49091
WT/WTpooled	0.97496	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	1.02211	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01275	0.921
DC3000/delta hrp 6h	1.06973	1
DC3000/delta hrp 12h	1.0532	1
DC3000/delta hrp 24h	0.93575	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.37941
DC3000 delta B/DC3000 delta AB	0.63084	0.024

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96553	1
Exp 36h	0.67581	0.449
Exp 60h	0.57304	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97368	1
Var 0h	0.84071	0.457
Var 12h I row2-row1	0.76076	0.39
Var 12h NI row2-row1	1.07893	1
Var 36h I row2-row1	0.9903	1
Var 36h NI row2-row1	0.93482	0.706
Var 60h I row2-row1	1.56665	0.562
Var 60h NI row2-row1	0.9638	1
Time course 0hI-0hNI	0.98222	0.947
Time course 12hI-12hNI	0.94928	0.698
Time course 36hI-36hNI	0.87415	0.028
Time course 60hI-60hNI	0.39379	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)	0.91283	0.409
transgenic ySAMdc/azygous control (breaker)	1.18597	1
transgenic ySAMdc/azygous control (red)	2.51283	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99564	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.11323	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.24455	0.086
Manapal/WT (break)	7.27944	0.13
Manapal/WT (red)	3.1915	0.15