Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49935	0.463
27DAP/17DAP	1.0381	0.905
39DAP/27DAP	1.15871	0.899
41DAP/39DAP	1.25255	0.85
42DAP/41DAP	0.94253	1
43DAP/42DAP	1.18635	0.999
47DAP/43DAP	1.08223	0.965
52DAP/47DAP	1.43217	0.615
57DAP/52DAP	0.76071	0.536

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86449	0.033
17DAP/reference	1.06707	0.104
27DAP/reference	1.00335	1
39DAP/reference	1.03368	0.343
41DAP/reference	1.05934	0.158
42DAP/reference	0.91358	0.038
43DAP/reference	1.07058	0.142
47DAP/reference	0.95586	0.224
52DAP/reference	0.81294	0.06
57DAP/reference	0.74198	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.48333	0.379
27DAP/17DAP	1.44814
39DAP/27DAP	1.19515	0.659
41DAP/39DAP	0.90314	0.986
42DAP/41DAP	1.70356	0.354
43DAP/42DAP	0.58607	0.022
47DAP/43DAP	1.01921
52DAP/47DAP	1.24468	0.703
57DAP/52DAP	2.05531	0.543
57DAP/7DAP	1.22927

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68816	0.138
17DAP/reference	0.70832	0.108
27DAP/reference	0.5514	0.01
39DAP/reference	0.93764	0.411
41DAP/reference	0.95829	0.326
42DAP/reference	0.86941	0.16
43DAP/reference	0.84242	0.192
47DAP/reference	1.27714	0.191
52DAP/reference	1.06732	0.74
57DAP/reference	1.17243	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03959	0.545
17DAP/reference	1.09357	0.052
27DAP/reference	1.12056	0.902
39DAP/reference	1.12053	0.412
41DAP/reference	0.88226	0.058
42DAP/reference	0.85352	0.013
43DAP/reference	1.01934	0.875
47DAP/reference	1.00154	0.749
52DAP/reference	1.19385	0.006
57DAP/reference	1.24558	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70984	0.127
17DAP/reference	0.89333	0.308
27DAP/reference	0.77788
39DAP/reference	1.19694	0.512
41DAP/reference	1.02818	1
42DAP/reference	0.99909	0.671
43DAP/reference	1.0713	0.993
47DAP/reference	0.87288	0.109
52DAP/reference	1.31288	0.428
57DAP/reference	0.57315	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98152	1
26DAP/20DAP	0.55479	0.223
34DAP/26DAP	1.0011
51DAP/34DAP	0.9066	0.758
52DAP/51DAP	0.66617	1
53DAP/52DAP	1.42581	0.444
55DAP/53DAP	0.67929	0.404
57DAP/55DAP	0.89794	0.78
62DAP/57DAP	0.96057	0.994
68DAP/62DAP	1.09938	0.845
68DAP/14DAP	0.95819	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.44892	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91396	0.527
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.88345	0.159
Ripe Pepper/Ripe Tomato	1.14156	0.258
Mature Eggplant/Ripe Tomato	29.4199	0.373

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	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	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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85798	0.321
IL2-6/WTpooled	0.99958	1
IL7-5/WTpooled	0.9941	1
IL7-3/WTpooled	0.63594	0.294
IL12-4/WTpooled	1.03697	1
IL1-4/WTpooled	0.88186	0.834
WT/WTpooled	1.04048	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99484	1
DC3000/delta hrp 6h	0.8756	0.95
DC3000/delta hrp 12h	1.14964	1
DC3000/delta hrp 24h	0.81722	0.083

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.49646	0.228
Exp 36h	1.16708	1
Exp 60h	1.57697	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.10456	0.259
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.93698	0.428
transgenic ySAMdc/azygous control (breaker)	0.56114	0.15
transgenic ySAMdc/azygous control (red)	1.10717	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0372	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.38286	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.939	1
Manapal/WT (break)	0.72522	0.333
Manapal/WT (red)	1.50401	0.142