Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04558	0.919
27DAP/17DAP	1.255	0.881
39DAP/27DAP	0.78558	0.399
41DAP/39DAP	0.85188	0.52
42DAP/41DAP	1.19692	0.642
43DAP/42DAP	0.9621	0.906
47DAP/43DAP	1.47055	0.293
52DAP/47DAP	1.29221	0.518
57DAP/52DAP	0.98666	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2625	0.028
17DAP/reference	1.20563	0.154
27DAP/reference	1.12686	0.435
39DAP/reference	1.18614	0.209
41DAP/reference	1.31835	0.102
42DAP/reference	1.03547	0.544
43DAP/reference	1.11873	0.287
47DAP/reference	1.16641	0.037
52DAP/reference	1.30412	0.035
57DAP/reference	1.05494	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98563	0.763
27DAP/17DAP	0.87091	0.39
39DAP/27DAP	1.03424	0.728
41DAP/39DAP	0.98627	0.98
42DAP/41DAP	1.12271	0.795
43DAP/42DAP	0.97495	0.774
47DAP/43DAP	0.99708	0.954
52DAP/47DAP	1.26709	0.382
57DAP/52DAP	1.04855	0.793
57DAP/7DAP	1.10749	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81417	0.115
17DAP/reference	0.88283	0.094
27DAP/reference	0.98473	0.571
39DAP/reference	0.96558	0.411
41DAP/reference	0.77146	0.07
42DAP/reference	0.97875	0.436
43DAP/reference	0.88509	0.21
47DAP/reference	0.87115	0.222
52DAP/reference	0.87572	0.15
57DAP/reference	0.97639	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.62346	0.046
17DAP/reference	1.372	0.04
27DAP/reference	1.43509	0.028
39DAP/reference	1.43276	0.013
41DAP/reference	1.43074	0.018
42DAP/reference	1.16358	0.309
43DAP/reference	1.31653	0.045
47DAP/reference	0.9679	0.473
52DAP/reference	1.5096	0.006
57DAP/reference	1.42628	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03393	0.918
17DAP/reference	1.18351	0.365
27DAP/reference	0.85411	0.092
39DAP/reference	0.96886	0.504
41DAP/reference	0.94993	0.56
42DAP/reference	1.02856	1
43DAP/reference	1.2986	0.109
47DAP/reference	1.10679	0.179
52DAP/reference	0.91113	0.247
57DAP/reference	0.91341	0.247

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.6607	0.176
26DAP/20DAP	0.91078	0.512
34DAP/26DAP	1.26766	0.542
51DAP/34DAP	1.00005	0.927
52DAP/51DAP	1.4319	0.193
53DAP/52DAP	1.20963	0.643
55DAP/53DAP	1.02952	0.951
57DAP/55DAP	0.88604	0.532
62DAP/57DAP	0.99457	1
68DAP/62DAP	0.74846	0.314
68DAP/14DAP	0.56125	0.054

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82006	0.166

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.03122	0.632
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.99809	1
Mature Eggplant/Ripe Tomato	0.9015

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.22919	0.536
1-1-2/M82	1.00319	1
12-2/M82	1.35652	0.61
12-4/M82	1.13185	1
1-3/M82	0.75242	0.378
2-1-1/M82	0.98932	1
2-1/M82	2.04399	0.345
2-6/M82	1.05723	1
3-2/M82	0.77373
4-1-1/M82	0.88653	1
4-1/M82	1.21642	0.853
4-3-2/M82	0.84553	0.698
4-3/M82	1.1501	1
5-3/M82	1.05734	1
6-2/M82	0.82144
6-3/M82	0.94126	0.587
7-1/M82	0.83425	0.476
7-2/M82	0.73091	0.796
9-3-2/M82	0.86874

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09351	1
IL2-6/WTpooled	1.68288
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.04979	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	0.93585	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10251	0.629
DC3000/delta hrp 6h	0.75315
DC3000/delta hrp 12h	0.99111	1
DC3000/delta hrp 24h	0.98064	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.49878
DC3000 delta B/DC3000 delta AB	0.55757	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03212	1
Var 0h	1.03513	0.98
Var 12h I row2-row1	0.77852	0.418
Var 12h NI row2-row1	0.84876	0.403
Var 36h I row2-row1	0.94999	0.805
Var 36h NI row2-row1	0.66826	1
Var 60h I row2-row1	3.24618	0.562
Var 60h NI row2-row1	0.95414	1
Time course 0hI-0hNI	1.03772	0.867
Time course 12hI-12hNI	0.93832	0.497
Time course 36hI-36hNI	0.8853	0.074
Time course 60hI-60hNI	0.37292	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)	1.01247	0.699
transgenic ySAMdc/azygous control (breaker)	0.90989	0.49
transgenic ySAMdc/azygous control (red)	0.98114	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.86457	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.13985	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.21427	0.105
Manapal/WT (break)	1.11551	0.381
Manapal/WT (red)	1.33154	0.142