Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.13.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.017	0.932
27DAP/17DAP	1.18894	0.799
39DAP/27DAP	0.8379	0.255
41DAP/39DAP	1.30359	0.268
42DAP/41DAP	1.38703	0.671
43DAP/42DAP	0.87368	0.643
47DAP/43DAP	1.10242	0.527
52DAP/47DAP	1.47162	0.288
57DAP/52DAP	0.91087	0.852

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01309	1
17DAP/reference	0.99567	0.904
27DAP/reference	1.01353	0.806
39DAP/reference	0.93393	0.467
41DAP/reference	1.006	0.91
42DAP/reference	1.01356	0.782
43DAP/reference	0.97587	0.691
47DAP/reference	0.92999	0.116
52DAP/reference	0.91935	0.23
57DAP/reference	0.87618	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99684	0.847
27DAP/17DAP	0.99394	0.943
39DAP/27DAP	1.06954	0.553
41DAP/39DAP	1.06944	0.887
42DAP/41DAP	1.03814	0.999
43DAP/42DAP	0.98125	0.831
47DAP/43DAP	0.97233	0.857
52DAP/47DAP	1.02894	0.919
57DAP/52DAP	1.02097	0.925
57DAP/7DAP	1.23805	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00475	1
17DAP/reference	0.90739	0.012
27DAP/reference	0.88293	0.01
39DAP/reference	0.93772	0.02
41DAP/reference	0.91076	0.032
42DAP/reference	0.90941	0.042
43DAP/reference	0.88943	0.013
47DAP/reference	0.98477	0.671
52DAP/reference	0.88519	0.072
57DAP/reference	0.88801	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01057	0.915
17DAP/reference	1.08202	0.264
27DAP/reference	0.94161	0.352
39DAP/reference	0.9185	0.072
41DAP/reference	0.9426	0.25
42DAP/reference	1.01577	0.987
43DAP/reference	1.10048	0.215
47DAP/reference	1.04775	0.441
52DAP/reference	0.96665	0.28
57DAP/reference	1.05404	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01952	0.804
17DAP/reference	1.04304	0.641
27DAP/reference	0.8596	0.032
39DAP/reference	0.90004	0.147
41DAP/reference	0.93803	0.185
42DAP/reference	0.85862	0.019
43DAP/reference	0.89684	0.059
47DAP/reference	1.00617	1
52DAP/reference	0.85249	0.158
57DAP/reference	0.86257	0.046

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02442	0.966
26DAP/20DAP	0.85753	0.512
34DAP/26DAP	1.14706	0.819
51DAP/34DAP	0.83382	0.117
52DAP/51DAP	0.94988	1
53DAP/52DAP	0.99594	0.978
55DAP/53DAP	1.13219	0.312
57DAP/55DAP	1.07906	0.975
62DAP/57DAP	1.13355	0.833
68DAP/62DAP	0.89697	0.609
68DAP/14DAP	0.78519	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11181	0.7

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01522	0.666
Mature Green Tomato/Ripe Tomato	0.841	0.287
Immature Eggplant/Mature Eggplant	0.96913	0.594
Ripe Pepper/Ripe Tomato	0.72801	0.293
Mature Eggplant/Ripe Tomato	0.9303	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93768	0.477
1-1-2/M82	0.81316	0.958
12-2/M82	N/A	N/A
12-4/M82	1.01958	1
1-3/M82	0.92887	0.441
2-1-1/M82	0.9351
2-1/M82	1.06009	1
2-6/M82	1.11031	0.505
3-2/M82	0.87995	1
4-1-1/M82	0.89631	1
4-1/M82	1.06893	1
4-3-2/M82	0.85347
4-3/M82	0.91132	0.72
5-3/M82	1.00699	1
6-2/M82	0.95525
6-3/M82	0.94692	0.68
7-1/M82	1.15484	0.992
7-2/M82	0.97826	0.881
9-3-2/M82	0.75673	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.21871	0.277
IL2-6/WTpooled	0.88121	0.473
IL7-5/WTpooled	1.28347	0.792
IL7-3/WTpooled	0.92496	0.418
IL12-4/WTpooled	1.30847	0.785
IL1-4/WTpooled	0.95836	1
WT/WTpooled	1.0484	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	1.03134	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94966	1
DC3000/delta hrp 6h	0.90073	0.95
DC3000/delta hrp 12h	1.09641	1
DC3000/delta hrp 24h	1.08359	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23645	0.27
DC3000 delta B/DC3000 delta AB	1.00101	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00091	1
Exp 36h	1.32223	0.489
Exp 60h	1.0168	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01295	1
Var 0h	0.46937	1
Var 12h I row2-row1	1.06679	0.736
Var 12h NI row2-row1	0.92548	0.713
Var 36h I row2-row1	1.05965	1
Var 36h NI row2-row1	0.94172	0.743
Var 60h I row2-row1	1.89681	0.562
Var 60h NI row2-row1	1.37282	0.904
Time course 0hI-0hNI	1.11445	0.799
Time course 12hI-12hNI	1.02596	0.82
Time course 36hI-36hNI	0.8725	0.132
Time course 60hI-60hNI	0.98696	1

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)	0.79098	0.32
transgenic ySAMdc/azygous control (breaker)	1.00863	1
transgenic ySAMdc/azygous control (red)	1.13323	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03027	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15908	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00871	1
Manapal/WT (break)	0.95203	1
Manapal/WT (red)	1.72012	0.137