Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.17.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79303	0.073
27DAP/17DAP	0.85362	0.637
39DAP/27DAP	1.1652	0.56
41DAP/39DAP	1.08367	0.797
42DAP/41DAP	1.62596	0.295
43DAP/42DAP	0.94577	0.877
47DAP/43DAP	0.87775	0.599
52DAP/47DAP	1.04112	0.946
57DAP/52DAP	1.42404	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94189	0.336
17DAP/reference	0.84402	0.041
27DAP/reference	0.87568	0.083
39DAP/reference	0.92368	0.2
41DAP/reference	0.80097	0.009
42DAP/reference	0.96011	0.211
43DAP/reference	0.90409	0.148
47DAP/reference	1.00865	1
52DAP/reference	0.97832	0.504
57DAP/reference	1.14126	0.079

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75832	0.141
27DAP/17DAP	1.1349	0.915
39DAP/27DAP	1.01362	0.862
41DAP/39DAP	0.94846	0.875
42DAP/41DAP	1.51065	0.024
43DAP/42DAP	1.23422	0.079
47DAP/43DAP	0.94117	0.525
52DAP/47DAP	0.94013	0.746
57DAP/52DAP	0.82255	0.109
57DAP/7DAP	0.92368	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26126	0.138
17DAP/reference	1.12311	0.244
27DAP/reference	0.9482	0.375
39DAP/reference	1.10057	0.634
41DAP/reference	1.24241	0.416
42DAP/reference	0.96263	0.338
43DAP/reference	1.20521	0.111
47DAP/reference	1.2102	0.241
52DAP/reference	1.17881	0.034
57DAP/reference	1.05232	0.5

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04129	0.634
17DAP/reference	0.87687	0.189
27DAP/reference	1.0116	1
39DAP/reference	0.88888	0.132
41DAP/reference	0.84552	0.124
42DAP/reference	0.74108	0.037
43DAP/reference	0.83596	0.14
47DAP/reference	0.91429	0.11
52DAP/reference	0.94465	0.38
57DAP/reference	0.84944	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98576	0.607
17DAP/reference	0.84125	0.292
27DAP/reference	0.98648	0.657
39DAP/reference	1.05221	0.836
41DAP/reference	1.09623	0.754
42DAP/reference	0.93408	0.445
43DAP/reference	1.20938	0.302
47DAP/reference	0.85414	0.009
52DAP/reference	0.9815	0.663
57DAP/reference	1.13246	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04749	0.966
26DAP/20DAP	1.38309	0.262
34DAP/26DAP	1.53497	0.819
51DAP/34DAP	0.75357	0.116
52DAP/51DAP	0.94541	1
53DAP/52DAP	0.69863	0.153
55DAP/53DAP	0.99135	0.796
57DAP/55DAP	1.27376	0.461
62DAP/57DAP	0.88034	0.681
68DAP/62DAP	1.41216	0.21
68DAP/14DAP	0.73448	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.00322	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.26537	0.058
Mature Green Tomato/Ripe Tomato	0.56696	0.055
Immature Eggplant/Mature Eggplant	1.26542	0.063
Ripe Pepper/Ripe Tomato	0.24897	0.224
Mature Eggplant/Ripe Tomato	0.75895	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23118	0.877
1-1-2/M82	1.0672	1
12-2/M82	1.20094	1
12-4/M82	1.24516	1
1-3/M82	1.06471	1
2-1-1/M82	0.86838	0.92
2-1/M82	1.21945	1
2-6/M82	1.00909	1
3-2/M82	1.39645	0.463
4-1-1/M82	1.28246	1
4-1/M82	1.27291	0.853
4-3-2/M82	1.48413	0.241
4-3/M82	1.96409	0.268
5-3/M82	0.91361	1
6-2/M82	1.89846	0.253
6-3/M82	1.1329	1
7-1/M82	0.73021	0.452
7-2/M82	0.85672	0.527
9-3-2/M82	1.41711	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.63911
IL2-6/WTpooled	1.00796	0.788
IL7-5/WTpooled	0.83872	1
IL7-3/WTpooled	0.60449	0.31
IL12-4/WTpooled	0.91837	0.581
IL1-4/WTpooled	0.89723	0.338
WT/WTpooled	0.98449	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	0.95359	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95079	1
DC3000/delta hrp 6h	1.12814	1
DC3000/delta hrp 12h	1.06968	1
DC3000/delta hrp 24h	1.04613	0.728

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	0.65992

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9802	1
Exp 36h	1.66464	0.489
Exp 60h	1.18058	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09282	1
Var 0h	15.703	1
Var 12h I row2-row1	1.33537	0.473
Var 12h NI row2-row1	1.12358	0.649
Var 36h I row2-row1	1.39099	0.742
Var 36h NI row2-row1	1.90367	1
Var 60h I row2-row1	0.88539	0.832
Var 60h NI row2-row1	1.18401	0.904
Time course 0hI-0hNI	0.93503	0.618
Time course 12hI-12hNI	1.05987	0.367
Time course 36hI-36hNI	1.03982	1
Time course 60hI-60hNI	2.44799	0.008

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)	1.01025	1
transgenic ySAMdc/azygous control (breaker)	1.10186	0.248
transgenic ySAMdc/azygous control (red)	1.09534	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83691	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.71947	1
Manapal/WT (break)	0.66326	0.285
Manapal/WT (red)	0.6539	0.181