Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15887	0.534
27DAP/17DAP	0.91678	0.819
39DAP/27DAP	1.11124	0.915
41DAP/39DAP	1.35275	0.403
42DAP/41DAP	0.97203	1
43DAP/42DAP	0.9212	0.834
47DAP/43DAP	0.68845	0.199
52DAP/47DAP	1.87728	0.227
57DAP/52DAP	0.91636	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7645	0.027
17DAP/reference	0.99542	0.904
27DAP/reference	0.9388	0.275
39DAP/reference	0.80953	0.034
41DAP/reference	0.95598	0.434
42DAP/reference	0.80226	0.003
43DAP/reference	1.07477	0.403
47DAP/reference	0.93924	0.148
52DAP/reference	0.83115	0.079
57DAP/reference	0.80392	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84881	0.323
27DAP/17DAP	1.02294	1
39DAP/27DAP	0.97816	0.852
41DAP/39DAP	1.16529	0.514
42DAP/41DAP	0.89768	0.399
43DAP/42DAP	1.05247	0.699
47DAP/43DAP	0.83041	0.588
52DAP/47DAP	1.14017	0.57
57DAP/52DAP	0.93901	0.668
57DAP/7DAP	2.01426

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88361	0.108
17DAP/reference	0.93912	0.253
27DAP/reference	1.23385	0.007
39DAP/reference	0.80692	0.073
41DAP/reference	0.81086	0.098
42DAP/reference	0.81364	0.014
43DAP/reference	0.75391	0.011
47DAP/reference	0.91882	0.383
52DAP/reference	0.90269	0.072
57DAP/reference	0.84852	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86031	0.119
17DAP/reference	0.87011	0.014
27DAP/reference	0.76603	0.06
39DAP/reference	0.68995	0.015
41DAP/reference	0.64934	0.024
42DAP/reference	0.73723	0.016
43DAP/reference	1.1107	0.854
47DAP/reference	0.85071	0.045
52DAP/reference	0.83931	0.156
57DAP/reference	0.89705	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76498	0.029
17DAP/reference	0.95537	0.537
27DAP/reference	0.88585	0.195
39DAP/reference	0.70468	0.007
41DAP/reference	0.8397	0.031
42DAP/reference	0.8923	0.059
43DAP/reference	0.72256	0.049
47DAP/reference	0.84351	0.048
52DAP/reference	0.78913	0.134
57DAP/reference	0.6717	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14364	0.966
26DAP/20DAP	0.91825	1
34DAP/26DAP	0.96144	0.954
51DAP/34DAP	0.84261	0.286
52DAP/51DAP	0.89319	1
53DAP/52DAP	0.98047	0.924
55DAP/53DAP	1.24031	0.225
57DAP/55DAP	1.11093	0.626
62DAP/57DAP	1.25715	0.217
68DAP/62DAP	0.95351	0.787
68DAP/14DAP	1.07482	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24603	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.07043
Mature Green Tomato/Ripe Tomato	1.14875	0.881
Immature Eggplant/Mature Eggplant	4.26804
Ripe Pepper/Ripe Tomato	1.72085	1
Mature Eggplant/Ripe Tomato	1.22301	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03006	0.742
1-1-2/M82	0.77579	0.958
12-2/M82	1.36489
12-4/M82	0.88479	0.619
1-3/M82	1.07845	0.479
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.87445	1
3-2/M82	0.97023	1
4-1-1/M82	N/A	N/A
4-1/M82	0.9932	0.512
4-3-2/M82	1.04789
4-3/M82	N/A	N/A
5-3/M82	1.04784	1
6-2/M82	0.83106
6-3/M82	N/A	N/A
7-1/M82	1.1221
7-2/M82	1.00169	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75752	0.321
IL2-6/WTpooled	0.79882	0.473
IL7-5/WTpooled	0.96062	1
IL7-3/WTpooled	0.9383	0.294
IL12-4/WTpooled	0.73261	0.539
IL1-4/WTpooled	0.82802	0.444
WT/WTpooled	1.06477	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	1.03995	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0059	1
DC3000/delta hrp 6h	0.73703
DC3000/delta hrp 12h	1.35723	1
DC3000/delta hrp 24h	0.98219	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.16455

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94082	0.328
Exp 36h	1.25668	1
Exp 60h	1.26695	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94161	1
Var 0h	0.51143	1
Var 12h I row2-row1	1.05422	0.296
Var 12h NI row2-row1	0.7831	0.488
Var 36h I row2-row1	0.94245	0.805
Var 36h NI row2-row1	1.10259	1
Var 60h I row2-row1	1.18665	0.562
Var 60h NI row2-row1	1.03323	1
Time course 0hI-0hNI	0.96603	0.758
Time course 12hI-12hNI	1.04468	0.593
Time course 36hI-36hNI	0.93904	0.127
Time course 60hI-60hNI	0.8018	0.015

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)	0.93712	0.662
transgenic ySAMdc/azygous control (breaker)	1.26911	1
transgenic ySAMdc/azygous control (red)	0.93401	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04824	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78769	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15496	0.307
Manapal/WT (break)	0.90135	1
Manapal/WT (red)	0.788	0.274