Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.14.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06628	0.878
27DAP/17DAP	1.03574	0.92
39DAP/27DAP	0.93159	0.62
41DAP/39DAP	1.44888	0.265
42DAP/41DAP	1.0124	1
43DAP/42DAP	0.97987	0.925
47DAP/43DAP	1.08723	0.563
52DAP/47DAP	1.5089	0.37
57DAP/52DAP	1.07949	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09727	0.139
17DAP/reference	1.05637	0.282
27DAP/reference	1.01213	0.981
39DAP/reference	0.94935	0.424
41DAP/reference	1.0117	0.855
42DAP/reference	1.0394	0.037
43DAP/reference	1.0013	1
47DAP/reference	1.01906	0.612
52DAP/reference	0.95523	0.35
57DAP/reference	0.94941	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91292	0.251
27DAP/17DAP	0.99561	0.969
39DAP/27DAP	1.01913	0.779
41DAP/39DAP	1.04143	0.861
42DAP/41DAP	0.98502	0.809
43DAP/42DAP	1.0122	0.699
47DAP/43DAP	1.00799	0.948
52DAP/47DAP	1.02026	0.915
57DAP/52DAP	1.04046	0.74
57DAP/7DAP	0.99705	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81597	0.146
17DAP/reference	0.94668	0.082
27DAP/reference	0.92454	0.2
39DAP/reference	1.12292	0.314
41DAP/reference	0.86933	0.09
42DAP/reference	0.94008	0.32
43DAP/reference	0.84726	0.061
47DAP/reference	0.94825	0.383
52DAP/reference	0.81505	0.126
57DAP/reference	0.81403	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96667	0.592
17DAP/reference	1.0229	0.904
27DAP/reference	0.99157	0.642
39DAP/reference	1.02785	0.824
41DAP/reference	0.9924	0.57
42DAP/reference	1.0512	0.5
43DAP/reference	1.11269	0.633
47DAP/reference	0.98867	0.512
52DAP/reference	0.95376	0.072
57DAP/reference	0.93321	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77537	0.063
17DAP/reference	0.93562	0.281
27DAP/reference	0.93361	0.133
39DAP/reference	0.92624	0.122
41DAP/reference	0.92211	0.185
42DAP/reference	0.97434	0.552
43DAP/reference	0.93657	0.305
47DAP/reference	0.97577	0.509
52DAP/reference	0.83157	0.134
57DAP/reference	1.02282	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11649	0.207
26DAP/20DAP	0.96838	1
34DAP/26DAP	1.04935	1
51DAP/34DAP	0.94207	0.508
52DAP/51DAP	0.98783	1
53DAP/52DAP	0.90609	0.776
55DAP/53DAP	0.99387	0.917
57DAP/55DAP	0.95899	0.795
62DAP/57DAP	1.05563	0.868
68DAP/62DAP	1.08444	0.944
68DAP/14DAP	0.93488	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03202	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9177	0.503
Mature Green Tomato/Ripe Tomato	0.86002	0.317
Immature Eggplant/Mature Eggplant	0.8546	0.329
Ripe Pepper/Ripe Tomato	1.40751	1
Mature Eggplant/Ripe Tomato	1.7297	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09903	0.877
1-1-2/M82	1.05305	1
12-2/M82	0.96648	0.678
12-4/M82	0.94571	1
1-3/M82	0.9811	1
2-1-1/M82	1.05052	0.689
2-1/M82	N/A	N/A
2-6/M82	1.03027	0.695
3-2/M82	1.07473	0.967
4-1-1/M82	0.93305	1
4-1/M82	1.02653	1
4-3-2/M82	0.94315	1
4-3/M82	1.16273	1
5-3/M82	1.05176	1
6-2/M82	1.03763	1
6-3/M82	0.97703	0.916
7-1/M82	1.07743	0.598
7-2/M82	0.99227	1
9-3-2/M82	0.78092	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.27795	0.367
IL1-4/WTpooled	1.16796	1
WT/WTpooled	1.04559	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	1.05487	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01369	0.914
DC3000/delta hrp 6h	0.8612	0.95
DC3000/delta hrp 12h	0.99912	1
DC3000/delta hrp 24h	0.99896	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01798	0.598
DC3000 delta B/DC3000 delta AB	0.98285	0.892

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06107	1
Exp 36h	0.96589	0.943
Exp 60h	1.16454	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00451	1
Var 0h	0.98628	1
Var 12h I row2-row1	1.01382	0.795
Var 12h NI row2-row1	0.90224	0.546
Var 36h I row2-row1	1.01184	1
Var 36h NI row2-row1	0.9978	1
Var 60h I row2-row1	1.48579	1
Var 60h NI row2-row1	1.10951	0.904
Time course 0hI-0hNI	0.98855	0.994
Time course 12hI-12hNI	0.92477	0.431
Time course 36hI-36hNI	0.89023	0.084
Time course 60hI-60hNI	0.56256	0.006

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)	0.87546	0.255
transgenic ySAMdc/azygous control (breaker)	0.98791	1
transgenic ySAMdc/azygous control (red)	1.07483	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95048	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04659	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96845	1
Manapal/WT (break)	1.0125	1
Manapal/WT (red)	0.66161	0.181