Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13377	0.725
27DAP/17DAP	1.48349	0.552
39DAP/27DAP	0.84159	0.512
41DAP/39DAP	1.2194	0.261
42DAP/41DAP	1.21366	0.882
43DAP/42DAP	0.72501	0.477
47DAP/43DAP	1.6828	0.223
52DAP/47DAP	0.76688	0.442
57DAP/52DAP	1.69774	0.748

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09845	0.46
17DAP/reference	1.36678	0.127
27DAP/reference	1.08601	0.559
39DAP/reference	1.22983	0.277
41DAP/reference	1.18504	0.393
42DAP/reference	0.97113	0.359
43DAP/reference	0.91335	0.17
47DAP/reference	1.05466	1
52DAP/reference	1.13063	0.134
57DAP/reference	1.02507	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95334	0.644
27DAP/17DAP	1.08059	0.848
39DAP/27DAP	1.43366	0.09
41DAP/39DAP	0.82368	0.236
42DAP/41DAP	1.5203	0.006
43DAP/42DAP	0.86971	0.165
47DAP/43DAP	0.83729	0.195
52DAP/47DAP	0.88244	0.585
57DAP/52DAP	0.65177	0.078
57DAP/7DAP	1.61928	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81394	0.086
17DAP/reference	0.72202	0.016
27DAP/reference	0.84855	0.035
39DAP/reference	0.70318	0.012
41DAP/reference	0.74	0.023
42DAP/reference	0.69917	0.01
43DAP/reference	0.73147	0.016
47DAP/reference	0.98141	0.671
52DAP/reference	0.71754	0.028
57DAP/reference	0.73704	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91252	0.532
17DAP/reference	0.8287	0.08
27DAP/reference	0.93161	0.34
39DAP/reference	0.91776	0.306
41DAP/reference	0.83476	0.173
42DAP/reference	0.93759	0.392
43DAP/reference	1.28842	0.073
47DAP/reference	0.96277	0.423
52DAP/reference	0.95239	0.407
57DAP/reference	0.86898	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79705	0.055
17DAP/reference	0.81279	0.186
27DAP/reference	0.69624	0.035
39DAP/reference	0.8373	0.063
41DAP/reference	0.83962	0.086
42DAP/reference	0.84463	0.041
43DAP/reference	0.8746	0.102
47DAP/reference	0.90625	0.357
52DAP/reference	0.57976	0.07
57DAP/reference	0.96582	0.475

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.69307	0.787
26DAP/20DAP	0.94667	1
34DAP/26DAP	1.45585	0.819
51DAP/34DAP	1.63766	0.075
52DAP/51DAP	0.80323	1
53DAP/52DAP	0.9816	0.924
55DAP/53DAP	0.90309	0.376
57DAP/55DAP	1.06344	1
62DAP/57DAP	1.16683	0.868
68DAP/62DAP	1.26151	0.897
68DAP/14DAP	0.94639

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.18265	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.82026	0.209
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.77451

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.46207
12-2/M82	N/A	N/A
12-4/M82	0.94771
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	0.48561
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	0.75388	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93301
IL2-6/WTpooled	1.19481	0.427
IL7-5/WTpooled	0.73378
IL7-3/WTpooled	1.04229	1
IL12-4/WTpooled	0.96241	1
IL1-4/WTpooled	1.01073	1
WT/WTpooled	0.96241	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	1.01113	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.78555	0.868
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.88821	1
DC3000/delta hrp 24h	0.72509	0.087

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	0.77466

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	1.17675	1
Var 0h	1.03427	1
Var 12h I row2-row1	0.91776	0.856
Var 12h NI row2-row1	1.20561	0.649
Var 36h I row2-row1	1.35492	0.601
Var 36h NI row2-row1	0.98117	0.852
Var 60h I row2-row1	1.05334	0.448
Var 60h NI row2-row1	0.60637	0.483
Time course 0hI-0hNI	1.0164	1
Time course 12hI-12hNI	1.04608	0.672
Time course 36hI-36hNI	0.91486	0.134
Time course 60hI-60hNI	0.79466	0.047

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)	0.96045	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1535	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.98694	1
Manapal/WT (red)	0.86048	0.36