Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.3.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77594	0.217
27DAP/17DAP	0.99153	0.994
39DAP/27DAP	0.98664	0.782
41DAP/39DAP	1.09571	1
42DAP/41DAP	1.19782	0.871
43DAP/42DAP	0.82806	0.514
47DAP/43DAP	1.01362	0.943
52DAP/47DAP	0.86864	0.637
57DAP/52DAP	0.81677	0.727

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12396	0.132
17DAP/reference	0.88246	0.091
27DAP/reference	0.88413	0.083
39DAP/reference	0.86609	0.06
41DAP/reference	0.89901	0.114
42DAP/reference	0.86708	0.012
43DAP/reference	0.95281	0.519
47DAP/reference	0.94677	0.242
52DAP/reference	0.91199	0.152
57DAP/reference	1.02465	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89884	0.542
27DAP/17DAP	N/A	N/A
39DAP/27DAP	1.12812	0.742
41DAP/39DAP	1.06541
42DAP/41DAP	1.5123	0.893
43DAP/42DAP	N/A	N/A
47DAP/43DAP	0.86354
52DAP/47DAP	1.08759	0.935
57DAP/52DAP	0.48688
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35532	0.031
17DAP/reference	1.07499	0.525
27DAP/reference	0.99741	0.698
39DAP/reference	1.16577	0.024
41DAP/reference	1.08652	0.291
42DAP/reference	0.93583	0.436
43DAP/reference	1.16199	0.05
47DAP/reference	1.15803	0.259
52DAP/reference	1.15557	0.375
57DAP/reference	1.04792	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11149	0.438
17DAP/reference	0.81705	0.035
27DAP/reference	0.94499	0.381
39DAP/reference	0.87381	0.085
41DAP/reference	0.95539	0.231
42DAP/reference	1.03287	1
43DAP/reference	0.84557	0.125
47DAP/reference	0.96915	0.338
52DAP/reference	0.84241	0.018
57DAP/reference	0.76444	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26453	0.023
17DAP/reference	1.0269	0.784
27DAP/reference	0.98027	0.539
39DAP/reference	1.08492	0.245
41DAP/reference	1.04531	0.754
42DAP/reference	1.04418	0.627
43DAP/reference	0.85262	0.028
47DAP/reference	0.81286	0.024
52DAP/reference	0.92231	0.327
57DAP/reference	0.96199	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05061	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.23841	1
51DAP/34DAP	1.15574
52DAP/51DAP	0.51192
53DAP/52DAP	1.09296	0.678
55DAP/53DAP	1.59058	0.452
57DAP/55DAP	0.99152
62DAP/57DAP	0.91819	0.466
68DAP/62DAP	1.27549	0.398
68DAP/14DAP	1.18059	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.77535	0.249
Mature Green Tomato/Ripe Tomato	1.84798	0.237
Immature Eggplant/Mature Eggplant	0.60314	0.065
Ripe Pepper/Ripe Tomato	2.07114	0.256
Mature Eggplant/Ripe Tomato	1.50931	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04672	1
1-1-2/M82	1.00972
12-2/M82	0.9453
12-4/M82	0.84698	0.33
1-3/M82	0.84292
2-1-1/M82	1.19247
2-1/M82	1.03223
2-6/M82	0.89042	1
3-2/M82	1.05472
4-1-1/M82	0.9286	1
4-1/M82	1.72773	0.372
4-3-2/M82	1.09079	0.508
4-3/M82	0.93335	0.611
5-3/M82	0.94402	0.642
6-2/M82	0.74728
6-3/M82	0.83762
7-1/M82	1.12084
7-2/M82	0.97325	1
9-3-2/M82	1.01966	0.182

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9062	0.321
IL2-6/WTpooled	0.96476	1
IL7-5/WTpooled	0.67825
IL7-3/WTpooled	1.0449	1
IL12-4/WTpooled	0.99995	1
IL1-4/WTpooled	1.04732	1
WT/WTpooled	0.99503	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95904	1
DC3000/delta hrp 6h	1.35359	1
DC3000/delta hrp 12h	1.02047	1
DC3000/delta hrp 24h	0.57747	0.034

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02613	1
Exp 36h	0.93021	0.879
Exp 60h	1.11872	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.09339
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.99651	0.931
transgenic ySAMdc/azygous control (breaker)	1.36727	0.172
transgenic ySAMdc/azygous control (red)	1.03957	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01341	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92038	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17708	0.14
Manapal/WT (break)	0.86931	0.333
Manapal/WT (red)	1.02853	1