Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.14.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2119	0.477
27DAP/17DAP	1.09608	0.89
39DAP/27DAP	0.98102	0.749
41DAP/39DAP	1.59564	0.278
42DAP/41DAP	0.94649	1
43DAP/42DAP	0.85709	0.741
47DAP/43DAP	1.09314	0.902
52DAP/47DAP	1.72669	0.406
57DAP/52DAP	0.75829	0.681

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98637	0.63
17DAP/reference	1.11519	0.071
27DAP/reference	1.02167	0.82
39DAP/reference	1.06082	0.224
41DAP/reference	1.11936	0.047
42DAP/reference	1.07425	0.241
43DAP/reference	1.02202	0.73
47DAP/reference	1.05747	0.593
52DAP/reference	0.97976	0.515
57DAP/reference	0.93252	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97851	0.716
27DAP/17DAP	1.05233	0.957
39DAP/27DAP	1.12838	0.534
41DAP/39DAP	0.94569	0.662
42DAP/41DAP	1.18076	0.208
43DAP/42DAP	1.08027	0.382
47DAP/43DAP	0.9987	0.997
52DAP/47DAP	0.9543	0.834
57DAP/52DAP	1.00465	0.907
57DAP/7DAP	0.81239	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88641	0.088
17DAP/reference	0.85236	0.031
27DAP/reference	0.96061	0.303
39DAP/reference	0.83106	0.018
41DAP/reference	0.85413	0.022
42DAP/reference	0.83726	0.038
43DAP/reference	0.80102	0.018
47DAP/reference	0.8988	0.128
52DAP/reference	0.84039	0.115
57DAP/reference	0.7737	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17616	0.103
17DAP/reference	1.14341	0.658
27DAP/reference	1.10927	0.888
39DAP/reference	1.17478	0.075
41DAP/reference	1.17166	0.277
42DAP/reference	1.07078	0.532
43DAP/reference	1.27249	0.031
47DAP/reference	1.12248	0.049
52DAP/reference	1.14623	0.092
57DAP/reference	1.24904	0.072

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91368	0.311
17DAP/reference	1.01906	0.839
27DAP/reference	0.85486	0.085
39DAP/reference	0.78447	0.026
41DAP/reference	0.9042	0.07
42DAP/reference	0.79991	0.016
43DAP/reference	0.98602	0.639
47DAP/reference	1.23159	0.11
52DAP/reference	0.85522	0.172
57DAP/reference	0.92716	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0095	1
26DAP/20DAP	2.59294	0.581
34DAP/26DAP	1.2832	0.542
51DAP/34DAP	0.87389	0.492
52DAP/51DAP	1.17645	0.358
53DAP/52DAP	0.99781	0.978
55DAP/53DAP	1.18386	0.341
57DAP/55DAP	0.91349	0.652
62DAP/57DAP	0.99123	0.994
68DAP/62DAP	0.84513	0.579
68DAP/14DAP	0.69471	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66476	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.92254	0.426
Mature Green Tomato/Ripe Tomato	1.54776	0.086
Immature Eggplant/Mature Eggplant	1.24416	0.23
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.73539

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89149	0.883
1-1-2/M82	0.85061	1
12-2/M82	1.13275
12-4/M82	0.93767	1
1-3/M82	0.92017	0.378
2-1-1/M82	1.10985
2-1/M82	N/A	N/A
2-6/M82	1.10428	0.594
3-2/M82	N/A	N/A
4-1-1/M82	0.89852	1
4-1/M82	1.30071
4-3-2/M82	0.89656
4-3/M82	N/A	N/A
5-3/M82	0.98909	1
6-2/M82	0.79565
6-3/M82	0.97688
7-1/M82	N/A	N/A
7-2/M82	1.04804	1
9-3-2/M82	0.95299

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8066	0.321
IL2-6/WTpooled	1.53817	0.409
IL7-5/WTpooled	0.87673	1
IL7-3/WTpooled	0.84526	1
IL12-4/WTpooled	1.01037	1
IL1-4/WTpooled	1.01134	1
WT/WTpooled	1.02373	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	0.93126	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01844	0.921
DC3000/delta hrp 6h	1.06232	1
DC3000/delta hrp 12h	1.05433	1
DC3000/delta hrp 24h	0.96146	0.725

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07772	1
DC3000 delta B/DC3000 delta AB	1.06482	0.665

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0036	1
Exp 36h	0.97794	0.943
Exp 60h	1.10534	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9614	1
Var 0h	1.2675	0.936
Var 12h I row2-row1	1.03486	0.654
Var 12h NI row2-row1	0.89976	0.713
Var 36h I row2-row1	0.78892	1
Var 36h NI row2-row1	0.81499	0.706
Var 60h I row2-row1	1.13725	0.44
Var 60h NI row2-row1	1.26159	0.904
Time course 0hI-0hNI	1.05383	0.799
Time course 12hI-12hNI	1.02668	0.811
Time course 36hI-36hNI	0.87044	0.15
Time course 60hI-60hNI	0.94135	0.319

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)	1.05171	0.397
transgenic ySAMdc/azygous control (breaker)	1.17421	0.248
transgenic ySAMdc/azygous control (red)	1.09338	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98322	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9204	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78947	0.172
Manapal/WT (break)	0.89311	1
Manapal/WT (red)	0.8583	0.424