Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92187	0.532
27DAP/17DAP	0.93571	0.873
39DAP/27DAP	0.98151	0.733
41DAP/39DAP	1.12919	0.549
42DAP/41DAP	0.97133	1
43DAP/42DAP	0.80868	0.456
47DAP/43DAP	0.88088	0.609
52DAP/47DAP	1.43273	0.405
57DAP/52DAP	0.99921	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04301	0.587
17DAP/reference	0.98322	0.597
27DAP/reference	0.95945	0.359
39DAP/reference	1.00369	0.92
41DAP/reference	0.97102	0.434
42DAP/reference	1.02616	0.869
43DAP/reference	1.00353	1
47DAP/reference	1.07365	0.13
52DAP/reference	1.15977	0.167
57DAP/reference	1.05188	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02958	0.547
27DAP/17DAP	1.00604	0.976
39DAP/27DAP	1.00257	1
41DAP/39DAP	1.04177	0.773
42DAP/41DAP	0.9707	0.715
43DAP/42DAP	1.00603	0.664
47DAP/43DAP	1.01639	0.865
52DAP/47DAP	1.01921	0.927
57DAP/52DAP	1.01853	0.899
57DAP/7DAP	1.05902	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92828	0.203
17DAP/reference	1.00952	0.896
27DAP/reference	1.01287	0.974
39DAP/reference	0.96711	0.095
41DAP/reference	0.94726	0.064
42DAP/reference	0.97769	0.235
43DAP/reference	0.88345	0.159
47DAP/reference	0.88463	0.128
52DAP/reference	0.95958	0.049
57DAP/reference	1.03	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11947	0.119
17DAP/reference	1.64248	0.089
27DAP/reference	1.1644	0.149
39DAP/reference	1.13809	0.355
41DAP/reference	0.97266	0.441
42DAP/reference	1.09839	0.621
43DAP/reference	1.23089	0.111
47DAP/reference	0.99134	0.625
52DAP/reference	1.1115	0.079
57DAP/reference	1.0617	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90598	0.068
17DAP/reference	0.99835	0.855
27DAP/reference	0.89617	0.056
39DAP/reference	0.96831	0.643
41DAP/reference	0.97232	0.264
42DAP/reference	1.07024	0.589
43DAP/reference	1.07953	0.547
47DAP/reference	0.91404	0.191
52DAP/reference	0.93269	0.455
57DAP/reference	0.96106	0.41

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97612	1
26DAP/20DAP	1.01655	1
34DAP/26DAP	0.93189	0.642
51DAP/34DAP	1.17807	0.746
52DAP/51DAP	0.99673	1
53DAP/52DAP	1.02549	0.845
55DAP/53DAP	0.91326	0.325
57DAP/55DAP	1.04165	0.915
62DAP/57DAP	1.05899
68DAP/62DAP	0.99467	0.939
68DAP/14DAP	0.98483	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06698	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13368	0.058
Mature Green Tomato/Ripe Tomato	1.09317	0.881
Immature Eggplant/Mature Eggplant	1.1862	0.174
Ripe Pepper/Ripe Tomato	0.69476	0.293
Mature Eggplant/Ripe Tomato	0.77805	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89614	0.736
1-1-2/M82	1.00226	1
12-2/M82	0.89598	0.955
12-4/M82	0.96254	0.619
1-3/M82	1.00794	1
2-1-1/M82	0.95313	1
2-1/M82	1.06817	1
2-6/M82	1.00908	1
3-2/M82	1.05005	0.967
4-1-1/M82	1.02474	1
4-1/M82	0.97311
4-3-2/M82	0.913	0.698
4-3/M82	0.95167	1
5-3/M82	0.99131	1
6-2/M82	0.99721	1
6-3/M82	0.99994	1
7-1/M82	1.02827	1
7-2/M82	1.03277	1
9-3-2/M82	0.90939	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82946	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.0675	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.88813
IL1-4/WTpooled	0.93767	1
WT/WTpooled	N/A	N/A

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	1.16199	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.016	0.921
DC3000/delta hrp 6h	0.92962	0.95
DC3000/delta hrp 12h	0.96628	1
DC3000/delta hrp 24h	1.0855	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08993	0.053
DC3000 delta B/DC3000 delta AB	1.03356	0.571

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20169	1
Exp 36h	0.75898	0.504
Exp 60h	0.82955	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98604	1
Var 0h	1.04302	1
Var 12h I row2-row1	1.16817	0.263
Var 12h NI row2-row1	1.25097	0.649
Var 36h I row2-row1	0.98989	1
Var 36h NI row2-row1	0.86129	0.549
Var 60h I row2-row1	1.18138	1
Var 60h NI row2-row1	0.91098	0.932
Time course 0hI-0hNI	1.01877	1
Time course 12hI-12hNI	1.02081	0.816
Time course 36hI-36hNI	1.00567	1
Time course 60hI-60hNI	1.13202	0.033

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)	1.01159	0.798
transgenic ySAMdc/azygous control (breaker)	1.33545	0.178
transgenic ySAMdc/azygous control (red)	1.15801	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02164	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.27349	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98961	1
Manapal/WT (break)	0.93394	1
Manapal/WT (red)	1.14497	0.413