Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.17.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2489	0.477
27DAP/17DAP	1.18628	0.864
39DAP/27DAP	1.19676	0.804
41DAP/39DAP	0.91462	0.724
42DAP/41DAP	1.31513	0.647
43DAP/42DAP	1.02956	0.945
47DAP/43DAP	1.70159	0.391
52DAP/47DAP	1.95645	0.498
57DAP/52DAP	0.95605	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82615	0.277
17DAP/reference	0.97681	0.664
27DAP/reference	1.04793	0.672
39DAP/reference	1.07069	0.691
41DAP/reference	0.96301	0.542
42DAP/reference	0.92781	0.03
43DAP/reference	0.99021	0.82
47DAP/reference	1.09963	0.404
52DAP/reference	1.21516	0.217
57DAP/reference	1.18099	0.153

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01374	0.899
27DAP/17DAP	1.17095	0.573
39DAP/27DAP	0.95964	0.737
41DAP/39DAP	0.81163	0.321
42DAP/41DAP	0.9127	0.591
43DAP/42DAP	0.86995	0.149
47DAP/43DAP	1.08918	0.889
52DAP/47DAP	1.00247	0.987
57DAP/52DAP	0.92699	0.637
57DAP/7DAP	1.2469	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75335	0.072
17DAP/reference	0.71081	0.039
27DAP/reference	0.72019	0.035
39DAP/reference	0.86545	0.073
41DAP/reference	0.81738	0.044
42DAP/reference	0.73613	0.025
43DAP/reference	0.72921	0.047
47DAP/reference	0.7797	0.222
52DAP/reference	0.9173	0.213
57DAP/reference	0.87913	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63722	0.009
17DAP/reference	0.83097	0.297
27DAP/reference	1.1333	0.902
39DAP/reference	1.08866	0.705
41DAP/reference	0.98246	0.493
42DAP/reference	0.96653	0.482
43DAP/reference	0.93427	0.478
47DAP/reference	1.18752	0.527
52DAP/reference	1.0553	0.713
57DAP/reference	1.07565	0.363

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73596	0.074
17DAP/reference	1.02282	0.988
27DAP/reference	1.14442	0.883
39DAP/reference	0.94122	0.464
41DAP/reference	0.99012	0.754
42DAP/reference	0.84469	0.287
43DAP/reference	1.16487	0.688
47DAP/reference	1.11746	0.388
52DAP/reference	0.96136	0.675
57DAP/reference	1.55713	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.77463	1
26DAP/20DAP	0.7531	0.512
34DAP/26DAP	0.99185	1
51DAP/34DAP	1.26579	0.565
52DAP/51DAP	1.34532	0.704
53DAP/52DAP	0.86647	0.663
55DAP/53DAP	1.14937	0.737
57DAP/55DAP	0.86369	0.398
62DAP/57DAP	1.35415	0.35
68DAP/62DAP	0.93765	0.834
68DAP/14DAP	0.61819	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92638	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.96197	0.66
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.5731
Mature Eggplant/Ripe Tomato	0.44236	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.22454
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.08037	0.563
1-3/M82	0.84958
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.75828
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.82891
5-3/M82	1.12745	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17046	0.493
IL2-6/WTpooled	0.87322	1
IL7-5/WTpooled	1.31444	0.502
IL7-3/WTpooled	0.95318	1
IL12-4/WTpooled	1.07735	0.624
IL1-4/WTpooled	0.99488	1
WT/WTpooled	0.92228	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	1.07072	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9691	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.97143	1
DC3000/delta hrp 24h	1.0596	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.44266	0.027
DC3000 delta B/DC3000 delta AB	0.60662	0.027

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	1.04736
Var 0h	0.90113	1
Var 12h I row2-row1	0.71239	0.565
Var 12h NI row2-row1	1.23245	1
Var 36h I row2-row1	0.91247	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.87845	1
Time course 0hI-0hNI	1.00244	1
Time course 12hI-12hNI	0.80854	0.05
Time course 36hI-36hNI	0.71512	0.023
Time course 60hI-60hNI	0.19817	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.99192	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9901	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2688	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15379	1
Manapal/WT (break)	1.13593	0.14
Manapal/WT (red)	1.11663	0.413