Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.18.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95389	0.713
27DAP/17DAP	1.06118	0.883
39DAP/27DAP	0.84629	0.495
41DAP/39DAP	1.51079	0.202
42DAP/41DAP	1.12849	0.954
43DAP/42DAP	0.9166	0.801
47DAP/43DAP	0.96713	0.847
52DAP/47DAP	1.86734	0.22
57DAP/52DAP	0.89945	0.889

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21835	0.218
17DAP/reference	1.04023	0.27
27DAP/reference	0.955	0.471
39DAP/reference	0.99706	0.957
41DAP/reference	1.05805	0.451
42DAP/reference	1.15414	0.012
43DAP/reference	1.05522	0.425
47DAP/reference	1.01526	0.84
52DAP/reference	1.10114	0.229
57DAP/reference	0.86914	0.033

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00145	0.899
27DAP/17DAP	0.96651	0.821
39DAP/27DAP	1.0497	0.646
41DAP/39DAP	1.04995	0.887
42DAP/41DAP	1.06264	0.795
43DAP/42DAP	1.00729	1
47DAP/43DAP	0.99391	0.983
52DAP/47DAP	1.07196	0.766
57DAP/52DAP	1.09235	0.466
57DAP/7DAP	1.11908	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88896	0.168
17DAP/reference	0.86316	0.012
27DAP/reference	0.88226	0.011
39DAP/reference	0.98394	0.264
41DAP/reference	0.91179	0.139
42DAP/reference	0.79006	0.011
43DAP/reference	0.86788	0.145
47DAP/reference	0.84509	0.222
52DAP/reference	0.87362	0.15
57DAP/reference	0.85948	0.064

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18999	0.141
17DAP/reference	1.29302	0.015
27DAP/reference	1.3376	0.075
39DAP/reference	1.23182	0.061
41DAP/reference	1.11497	0.536
42DAP/reference	1.08861	0.759
43DAP/reference	1.22435	0.021
47DAP/reference	0.97618	0.423
52DAP/reference	1.18536	0.023
57DAP/reference	1.32085	0.075

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89366	0.092
17DAP/reference	1.01215	0.775
27DAP/reference	0.9012	0.046
39DAP/reference	0.95867	0.147
41DAP/reference	0.87724	0.031
42DAP/reference	0.88802	0.087
43DAP/reference	1.00988	0.894
47DAP/reference	0.91968	0.145
52DAP/reference	0.88008	0.232
57DAP/reference	0.62828	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05073	0.966
26DAP/20DAP	0.95191	1
34DAP/26DAP	0.99584	1
51DAP/34DAP	0.90304	0.472
52DAP/51DAP	0.99131	1
53DAP/52DAP	0.94039	0.854
55DAP/53DAP	1.0579	0.693
57DAP/55DAP	1.15186	0.805
62DAP/57DAP	1.09178	0.723
68DAP/62DAP	0.81756	0.29
68DAP/14DAP	0.89217	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06829	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83119
Mature Green Tomato/Ripe Tomato	0.68814	0.042
Immature Eggplant/Mature Eggplant	1.30861	0.05
Ripe Pepper/Ripe Tomato	0.38269	0.224
Mature Eggplant/Ripe Tomato	2.14569	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01008	1
1-1-2/M82	0.9186	1
12-2/M82	0.94313
12-4/M82	0.97975	1
1-3/M82	0.9611
2-1-1/M82	0.97755	1
2-1/M82	N/A	N/A
2-6/M82	1.20607	0.425
3-2/M82	1.00115	1
4-1-1/M82	1.07276	1
4-1/M82	0.8238	1
4-3-2/M82	0.94366	1
4-3/M82	1.01246	1
5-3/M82	0.96737	1
6-2/M82	1.19942
6-3/M82	0.95625
7-1/M82	0.93945
7-2/M82	0.94449	0.881
9-3-2/M82	0.87369	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.32721
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.88444
IL1-4/WTpooled	0.9949
WT/WTpooled	0.9699	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	1.57143	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94841	1
DC3000/delta hrp 6h	1.20461	1
DC3000/delta hrp 12h	1.02551	1
DC3000/delta hrp 24h	1.08385	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17703	0.102
DC3000 delta B/DC3000 delta AB	1.08822	0.423

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18516	0.254
Exp 36h	1.18495	1
Exp 60h	1.37071	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.10787	1
Var 0h	0.9624	1
Var 12h I row2-row1	1.04433	0.736
Var 12h NI row2-row1	1.05675	1
Var 36h I row2-row1	0.92471	0.805
Var 36h NI row2-row1	0.75908	0.584
Var 60h I row2-row1	1.12632	1
Var 60h NI row2-row1	1.14805	0.904
Time course 0hI-0hNI	1.08009	0.833
Time course 12hI-12hNI	1.07917	0.734
Time course 36hI-36hNI	1.11442	0.722
Time course 60hI-60hNI	1.58719	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)	1.15707	0.289
transgenic ySAMdc/azygous control (breaker)	0.69301	0.15
transgenic ySAMdc/azygous control (red)	1.08903	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98455	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81125	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.25228	0.096
Manapal/WT (break)	0.90193	1
Manapal/WT (red)	0.96057	0.728