Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94308	0.652
27DAP/17DAP	0.92215	0.846
39DAP/27DAP	0.85276	0.474
41DAP/39DAP	1.52679	0.264
42DAP/41DAP	1.01308	1
43DAP/42DAP	0.9076	0.801
47DAP/43DAP	1.1962	0.52
52DAP/47DAP	1.16368	0.731
57DAP/52DAP	0.99795	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98353	0.601
17DAP/reference	1.03151	1
27DAP/reference	1.01957	0.923
39DAP/reference	1.07286	0.639
41DAP/reference	0.9757	0.542
42DAP/reference	0.99365	0.531
43DAP/reference	0.95765	0.576
47DAP/reference	0.91325	0.137
52DAP/reference	0.95824	0.427
57DAP/reference	1.02083	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01905	1
27DAP/17DAP	1.50464	0.066
39DAP/27DAP	0.94078	0.444
41DAP/39DAP	0.97288	0.968
42DAP/41DAP	0.99174	0.801
43DAP/42DAP	2.14222	0.382
47DAP/43DAP	0.97501	0.886
52DAP/47DAP	0.97306	0.901
57DAP/52DAP	1.09188	0.864
57DAP/7DAP	1.13692	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89564	0.183
17DAP/reference	0.86612	0.072
27DAP/reference	0.95779	0.303
39DAP/reference	0.93219	0.307
41DAP/reference	1.0259	1
42DAP/reference	0.91393	0.111
43DAP/reference	0.85111	0.105
47DAP/reference	0.97882	0.671
52DAP/reference	0.86884	0.137
57DAP/reference	0.79507	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07325	0.33
17DAP/reference	1.11939	0.459
27DAP/reference	0.87555	0.108
39DAP/reference	0.97981	0.497
41DAP/reference	0.80635	0.115
42DAP/reference	1.12497	0.697
43DAP/reference	1.1908	0.308
47DAP/reference	1.03905	0.731
52DAP/reference	1.03783	1
57DAP/reference	0.92612	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93664	0.249
17DAP/reference	1.04033	0.62
27DAP/reference	0.93896	0.442
39DAP/reference	0.97182	0.504
41DAP/reference	0.8995	0.055
42DAP/reference	1.03609	0.836
43DAP/reference	0.8423	0.073
47DAP/reference	0.97151	0.494
52DAP/reference	0.88916	0.296
57DAP/reference	0.83206	0.083

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09461	1
26DAP/20DAP	1.08357	0.813
34DAP/26DAP	0.83547	0.356
51DAP/34DAP	0.93365	0.504
52DAP/51DAP	1.07825	0.708
53DAP/52DAP	1.07316	0.944
55DAP/53DAP	0.91228	0.632
57DAP/55DAP	1.21316	0.865
62DAP/57DAP	1.0225	1
68DAP/62DAP	0.87335	0.668
68DAP/14DAP	0.83481	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18159	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.49292	0.058
Mature Green Tomato/Ripe Tomato	0.67272	0.487
Immature Eggplant/Mature Eggplant	0.55927	0.105
Ripe Pepper/Ripe Tomato	1.08394	1
Mature Eggplant/Ripe Tomato	1.94829	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02004	1
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.10572	1
1-3/M82	0.61499	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.04074	0.405
3-2/M82	0.96816
4-1-1/M82	N/A	N/A
4-1/M82	1.55262
4-3-2/M82	0.97349
4-3/M82	N/A	N/A
5-3/M82	0.94984	0.642
6-2/M82	N/A	N/A
6-3/M82	1.3708	1
7-1/M82	N/A	N/A
7-2/M82	0.98184	1
9-3-2/M82	0.77056

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.51539	0.277
IL2-6/WTpooled	0.99806	1
IL7-5/WTpooled	1.60243	0.792
IL7-3/WTpooled	0.9078	0.418
IL12-4/WTpooled	1.23252	0.695
IL1-4/WTpooled	1.15674	1
WT/WTpooled	0.91642	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	1.05438	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97917	1
DC3000/delta hrp 6h	1.20451	1
DC3000/delta hrp 12h	0.9325	1
DC3000/delta hrp 24h	0.73414	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.08636	0.333
DC3000 delta B/DC3000 delta AB	0.78451	0.279

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89681	1
Exp 36h	0.85584	0.699
Exp 60h	0.84343	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01118	1
Var 0h	1.18677	0.98
Var 12h I row2-row1	1.06714	0.473
Var 12h NI row2-row1	1.03198	1
Var 36h I row2-row1	1.04764	1
Var 36h NI row2-row1	1.29456	0.253
Var 60h I row2-row1	0.91782	0.832
Var 60h NI row2-row1	1.10256	0.904
Time course 0hI-0hNI	0.95641	0.781
Time course 12hI-12hNI	0.95037	0.569
Time course 36hI-36hNI	0.94525	0.38
Time course 60hI-60hNI	0.81619	0.081

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)	1.0999	0.312
transgenic ySAMdc/azygous control (breaker)	1.07281	0.248
transgenic ySAMdc/azygous control (red)	0.88616	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9629	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.69986	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59898	0.087
Manapal/WT (break)	1.33522	0.14
Manapal/WT (red)	1.22573	0.413