Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.6.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67897	0.19
27DAP/17DAP	0.58747	0.061
39DAP/27DAP	0.97082	0.663
41DAP/39DAP	0.44046	0.041
42DAP/41DAP	0.86428	1
43DAP/42DAP	1.07176	1
47DAP/43DAP	0.73304	0.248
52DAP/47DAP	0.93669	0.789
57DAP/52DAP	0.96188	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.40329	0.024
17DAP/reference	0.4877	0.007
27DAP/reference	0.48603	0.011
39DAP/reference	0.41761	0.005
41DAP/reference	0.4888	0.008
42DAP/reference	0.50678	0.001
43DAP/reference	0.39011	0.012
47DAP/reference	0.41489	0.001
52DAP/reference	0.36516	0.012
57DAP/reference	0.3901	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78092	0.131
27DAP/17DAP	0.99914	0.969
39DAP/27DAP	0.57744	0.037
41DAP/39DAP	0.3394	0.02
42DAP/41DAP	0.91181	0.453
43DAP/42DAP	2.08564	0.013
47DAP/43DAP	0.547	0.008
52DAP/47DAP	0.71433	0.08
57DAP/52DAP	1.0414	1
57DAP/7DAP	0.10362	0.181

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.29529	0.039
17DAP/reference	0.32471	0.011
27DAP/reference	0.3724	0.01
39DAP/reference	0.42688	0.011
41DAP/reference	0.43107	0.012
42DAP/reference	0.47538	0.01
43DAP/reference	0.3881	0.017
47DAP/reference	0.36879	0.034
52DAP/reference	0.27833	0.009
57DAP/reference	0.3655	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.39136	0.007
17DAP/reference	0.43492	0.008
27DAP/reference	0.45382	0.021
39DAP/reference	0.35833	0.01
41DAP/reference	0.37164	0.007
42DAP/reference	0.3444	0.01
43DAP/reference	0.39265	0.003
47DAP/reference	0.42381	0.009
52DAP/reference	0.29342	0.003
57DAP/reference	0.35777	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.36416	0.021
17DAP/reference	0.45042	0.046
27DAP/reference	0.36864	0.02
39DAP/reference	0.33433	0.008
41DAP/reference	0.37944	0.018
42DAP/reference	0.51221	0.023
43DAP/reference	0.50721	0.024
47DAP/reference	0.19451	0.004
52DAP/reference	0.31271	0.051
57DAP/reference	0.39396	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04125	1
26DAP/20DAP	0.98431	1
34DAP/26DAP	0.99567	1
51DAP/34DAP	0.71046	0.096
52DAP/51DAP	1.07957	0.626
53DAP/52DAP	0.51369	0.049
55DAP/53DAP	0.58096	0.027
57DAP/55DAP	0.86215	0.506
62DAP/57DAP	0.95117	0.994
68DAP/62DAP	0.95553	0.81
68DAP/14DAP	0.61946	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.19056	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	12.9375	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.71871
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	N/A	N/A
5-3/M82	N/A	N/A
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	1.05679

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.15515	0.277
IL2-6/WTpooled	0.91965	0.358
IL7-5/WTpooled	1.23862	0.792
IL7-3/WTpooled	0.89024	1
IL12-4/WTpooled	1.36606	0.695
IL1-4/WTpooled	1.04576	1
WT/WTpooled	1.00232	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	0.82855	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99403	1
DC3000/delta hrp 6h	1.08105	0.95
DC3000/delta hrp 12h	1.93323	1
DC3000/delta hrp 24h	0.78231	0.065

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.49933	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86044	0.203
Exp 36h	0.46343	0.504
Exp 60h	0.49953	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.20433	1
Var 0h	0.8744	0.457
Var 12h I row2-row1	0.99088	1
Var 12h NI row2-row1	0.83918	0.627
Var 36h I row2-row1	1.04171	1
Var 36h NI row2-row1	1.01821	1
Var 60h I row2-row1	1.09642	0.523
Var 60h NI row2-row1	1.03568	1
Time course 0hI-0hNI	1.06685	0.799
Time course 12hI-12hNI	0.93875	0.53
Time course 36hI-36hNI	0.82855	0.025
Time course 60hI-60hNI	0.22286	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)	2.39105	0.612
transgenic ySAMdc/azygous control (breaker)	1.37944	0.178
transgenic ySAMdc/azygous control (red)	1.48073	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95234	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04799	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.27088	0.093
Manapal/WT (break)	1.07142	1
Manapal/WT (red)	N/A	N/A