Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.2.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	46.4455	0.498
27DAP/17DAP	0.93266	0.952
39DAP/27DAP	1.04799	0.857
41DAP/39DAP	1.18918	0.742
42DAP/41DAP	1.26994	0.825
43DAP/42DAP	0.90516	0.827
47DAP/43DAP	1.06761	0.965
52DAP/47DAP	0.73386	0.341
57DAP/52DAP	1.17596	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92201	0.231
17DAP/reference	1.12489	0.096
27DAP/reference	1.00721	0.847
39DAP/reference	1.04446	0.497
41DAP/reference	1.07689	0.365
42DAP/reference	0.85029	0.006
43DAP/reference	1.01453	0.787
47DAP/reference	0.85192	0.038
52DAP/reference	1.11263	0.176
57DAP/reference	0.8552	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66526	0.428
27DAP/17DAP	1.14171	0.909
39DAP/27DAP	0.92669	0.55
41DAP/39DAP	1.18958	0.59
42DAP/41DAP	1.07327	0.715
43DAP/42DAP	1.13475	0.627
47DAP/43DAP	1.26641	0.724
52DAP/47DAP	0.356	0.166
57DAP/52DAP	1.09117	0.798
57DAP/7DAP	0.84363	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98238	0.55
17DAP/reference	1.01815	1
27DAP/reference	0.86005	0.094
39DAP/reference	1.14543	0.669
41DAP/reference	1.32976	0.042
42DAP/reference	0.93981	0.415
43DAP/reference	0.85791	0.105
47DAP/reference	0.95901	0.671
52DAP/reference	1.24837	0.149
57DAP/reference	1.06765	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05575	0.65
17DAP/reference	0.9071	0.26
27DAP/reference	0.90374	0.22
39DAP/reference	0.95658	0.381
41DAP/reference	0.92427	0.25
42DAP/reference	0.87844	0.121
43DAP/reference	0.91967	0.378
47DAP/reference	0.8689	0.03
52DAP/reference	0.87185	0.327
57DAP/reference	1.11138	0.93

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16012	0.196
17DAP/reference	1.13965	0.767
27DAP/reference	1.18332	0.487
39DAP/reference	0.93352	0.544
41DAP/reference	1.63546	0.015
42DAP/reference	0.82624	0.134
43DAP/reference	1.19046	0.634
47DAP/reference	0.92126	0.357
52DAP/reference	0.9476	0.538
57DAP/reference	0.94685	0.339

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.36801	0.966
26DAP/20DAP	0.79469	0.183
34DAP/26DAP	1.03487	1
51DAP/34DAP	0.79355	0.323
52DAP/51DAP	0.9136	1
53DAP/52DAP	1.30033	0.37
55DAP/53DAP	1.06817	0.869
57DAP/55DAP	0.90078	0.601
62DAP/57DAP	1.17775	0.569
68DAP/62DAP	1.07232	0.808
68DAP/14DAP	1.16056	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92207	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.76628
Immature Eggplant/Mature Eggplant	1.40086
Ripe Pepper/Ripe Tomato	1.0038
Mature Eggplant/Ripe Tomato	4.88796

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95948
1-1-2/M82	0.87927
12-2/M82	N/A	N/A
12-4/M82	0.85994
1-3/M82	N/A	N/A
2-1-1/M82	0.8524
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.84628	0.72
5-3/M82	1.04416	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00218	1
IL2-6/WTpooled	0.99753	1
IL7-5/WTpooled	1.081	1
IL7-3/WTpooled	0.46333	0.25
IL12-4/WTpooled	1.34202	0.503
IL1-4/WTpooled	1.04907	1
WT/WTpooled	1.00717	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	0.94386	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.312	1
DC3000/delta hrp 24h	0.89687	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.69296
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	1.26932	1
Exp 36h	2.21202	0.326
Exp 60h	2.17547	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97637
Var 0h	1.07144	0.252
Var 12h I row2-row1	1.03494	0.736
Var 12h NI row2-row1	0.95891
Var 36h I row2-row1	1.18675	1
Var 36h NI row2-row1	0.97215
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.03967	0.904
Time course 0hI-0hNI	0.83653	0.334
Time course 12hI-12hNI	2.72034	0.544
Time course 36hI-36hNI	1.09232	0.513
Time course 60hI-60hNI	1.25625	0.216

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)	1.71782	0.612
transgenic ySAMdc/azygous control (breaker)	1.40992	0.248
transgenic ySAMdc/azygous control (red)	1.7404	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99821	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27545	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72517	1
Manapal/WT (break)	1.04909	1
Manapal/WT (red)	1.08454	1