Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.6.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89938	0.496
27DAP/17DAP	1.02049	0.952
39DAP/27DAP	0.98391	0.769
41DAP/39DAP	1.18227	0.597
42DAP/41DAP	2.56538	0.028
43DAP/42DAP	1.54671	0.703
47DAP/43DAP	3.7255	0.201
52DAP/47DAP	0.592	0.121
57DAP/52DAP	1.58228	0.648

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91638	0.362
17DAP/reference	1.12555	0.041
27DAP/reference	1.01052	0.923
39DAP/reference	1.07322	0.243
41DAP/reference	1.0808	0.171
42DAP/reference	0.81768	0.032
43DAP/reference	0.96105	0.611
47DAP/reference	0.81896	0.007
52DAP/reference	0.71656	0.102
57DAP/reference	0.73885	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8272	0.131
27DAP/17DAP	0.96107	0.878
39DAP/27DAP	1.10357	0.499
41DAP/39DAP	0.84463	0.117
42DAP/41DAP	1.03986	0.961
43DAP/42DAP	1.21672	0.024
47DAP/43DAP	1.02426	0.857
52DAP/47DAP	1.15615	0.471
57DAP/52DAP	0.88026	0.209
57DAP/7DAP	1.05621	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81683	0.104
17DAP/reference	0.84789	0.124
27DAP/reference	0.79279	0.066
39DAP/reference	1.03385	0.865
41DAP/reference	0.8437	0.043
42DAP/reference	1.12709	0.889
43DAP/reference	0.9347	0.385
47DAP/reference	0.8694	0.168
52DAP/reference	1.01523	0.802
57DAP/reference	0.83448	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02252	0.965
17DAP/reference	1.02264	0.961
27DAP/reference	0.8255	0.062
39DAP/reference	0.85073	0.178
41DAP/reference	0.88507	0.13
42DAP/reference	0.95617	0.261
43DAP/reference	0.91549	0.307
47DAP/reference	1.01268	1
52DAP/reference	0.98956	0.576
57DAP/reference	1.19299	0.324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95873	0.526
17DAP/reference	0.89517	0.348
27DAP/reference	0.80406	0.055
39DAP/reference	0.89161	0.083
41DAP/reference	0.99557	0.682
42DAP/reference	0.72438	0.134
43DAP/reference	0.85351	0.281
47DAP/reference	0.90356	0.296
52DAP/reference	1.48347	0.284
57DAP/reference	0.58476	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04306	0.966
26DAP/20DAP	0.84776	0.512
34DAP/26DAP	1.36916	0.304
51DAP/34DAP	0.85681	0.323
52DAP/51DAP	1.06251	0.676
53DAP/52DAP	1.00294	1
55DAP/53DAP	0.91121	0.5
57DAP/55DAP	1.08358	0.935
62DAP/57DAP	1.112	0.935
68DAP/62DAP	1.26843	0.672
68DAP/14DAP	0.57967	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.87518	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.19711	0.058
Mature Green Tomato/Ripe Tomato	0.1057	0.016
Immature Eggplant/Mature Eggplant	0.83597	0.254
Ripe Pepper/Ripe Tomato	0.22984
Mature Eggplant/Ripe Tomato	2.02616	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84275	0.673
1-1-2/M82	1.23099	1
12-2/M82	1.03017	1
12-4/M82	1.29142	1
1-3/M82	1.77102	0.479
2-1-1/M82	1.04671	1
2-1/M82	1.24289	1
2-6/M82	1.06735	1
3-2/M82	1.06669	0.443
4-1-1/M82	0.89445	1
4-1/M82	1.2245	1
4-3-2/M82	1.15933	0.508
4-3/M82	1.00668	1
5-3/M82	0.85836	1
6-2/M82	0.96869	1
6-3/M82	1.0523	1
7-1/M82	0.90181	0.803
7-2/M82	1.10787	1
9-3-2/M82	1.74701	0.171

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.56547	0.277
IL2-6/WTpooled	0.94677	0.383
IL7-5/WTpooled	1.34838	0.792
IL7-3/WTpooled	0.96043	1
IL12-4/WTpooled	0.95718	0.566
IL1-4/WTpooled	0.97143	1
WT/WTpooled	0.98797	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	1.01957	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12068	1
DC3000/delta hrp 6h	0.85306	0.95
DC3000/delta hrp 12h	1.17641	1
DC3000/delta hrp 24h	1.02459	1

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	0.83329	0.178

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.69062	1
Exp 36h	1.32606	1
Exp 60h	0.76615	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06581	1
Var 0h	1.02403	1
Var 12h I row2-row1	1.13253	0.196
Var 12h NI row2-row1	0.75695	0.627
Var 36h I row2-row1	1.05497	0.908
Var 36h NI row2-row1	0.85714	0.329
Var 60h I row2-row1	1.38608	0.562
Var 60h NI row2-row1	1.21043	0.904
Time course 0hI-0hNI	1.26643	0.344
Time course 12hI-12hNI	1.00599	1
Time course 36hI-36hNI	1.07053	0.101
Time course 60hI-60hNI	1.1765	0.042

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)	0.97875	0.662
transgenic ySAMdc/azygous control (breaker)	1.2131	0.178
transgenic ySAMdc/azygous control (red)	1.06115	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00659	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13195	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9235	1
Manapal/WT (break)	0.96184	1
Manapal/WT (red)	1.24015	1