Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.12.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76799	0.156
27DAP/17DAP	0.85138	0.63
39DAP/27DAP	1.78323	0.07
41DAP/39DAP	0.48696	0.041
42DAP/41DAP	1.1062	1
43DAP/42DAP	1.14648	1
47DAP/43DAP	0.43349	0.049
52DAP/47DAP	1.31353	0.509
57DAP/52DAP	1.28763	0.77

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.8008	0.032
17DAP/reference	0.95387	0.474
27DAP/reference	0.57633	0.013
39DAP/reference	0.68532	0.06
41DAP/reference	0.71055	0.026
42DAP/reference	1.19966	0.027
43DAP/reference	0.74684	0.015
47DAP/reference	0.8714	0.021
52DAP/reference	0.5487	0.03
57DAP/reference	0.58491	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90672	0.238
27DAP/17DAP	1.05218	0.842
39DAP/27DAP	0.78358	0.063
41DAP/39DAP	1.15918	1
42DAP/41DAP	0.93281	0.565
43DAP/42DAP	0.88522	0.056
47DAP/43DAP	0.95112	0.559
52DAP/47DAP	0.56326	0.036
57DAP/52DAP	0.90085	0.532
57DAP/7DAP	0.43866	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.37109	0.024
17DAP/reference	2.45355	0.006
27DAP/reference	1.7216	0.008
39DAP/reference	1.40483	0.007
41DAP/reference	1.8355	0.01
42DAP/reference	1.61505	0.013
43DAP/reference	1.42729	0.008
47DAP/reference	1.22451	0.024
52DAP/reference	1.49646	0.024
57DAP/reference	1.23813	0.082

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22782	0.308
17DAP/reference	1.61501	0.009
27DAP/reference	1.86104	0.017
39DAP/reference	1.08408	1
41DAP/reference	1.51541	0.005
42DAP/reference	1.66671	0.03
43DAP/reference	0.85676	0.201
47DAP/reference	1.17842	0.377
52DAP/reference	0.5232	0.003
57DAP/reference	0.63879	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.35923	0.015
17DAP/reference	1.66699	0.179
27DAP/reference	1.63633	0.023
39DAP/reference	1.65462	0.011
41DAP/reference	1.15241	0.029
42DAP/reference	1.40512	0.035
43DAP/reference	1.63448	0.049
47DAP/reference	0.50752	0.008
52DAP/reference	1.13455	0.549
57DAP/reference	1.37409	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10506	0.966
26DAP/20DAP	3.10247	0.097
34DAP/26DAP	0.75121	0.186
51DAP/34DAP	0.95947	0.714
52DAP/51DAP	1.0757	0.733
53DAP/52DAP	0.81692	0.226
55DAP/53DAP	1.01753	1
57DAP/55DAP	0.87873	0.499
62DAP/57DAP	0.98093	0.994
68DAP/62DAP	0.96631	0.787
68DAP/14DAP	0.75867	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.48363	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82421	0.279
Mature Green Tomato/Ripe Tomato	2.20877	0.018
Immature Eggplant/Mature Eggplant	1.03812	0.554
Ripe Pepper/Ripe Tomato	1.23177	1
Mature Eggplant/Ripe Tomato	1.62634	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.67613
1-1-2/M82	1.07685	1
12-2/M82	0.65261
12-4/M82	1.09083	1
1-3/M82	N/A	N/A
2-1-1/M82	1.12808	1
2-1/M82	1.13111	1
2-6/M82	N/A	N/A
3-2/M82	1.07812	0.967
4-1-1/M82	0.50188
4-1/M82	2.14267	0.444
4-3-2/M82	1.64992	0.262
4-3/M82	1.50873
5-3/M82	1.49838	0.378
6-2/M82	2.03378
6-3/M82	N/A	N/A
7-1/M82	1.1546
7-2/M82	N/A	N/A
9-3-2/M82	1.39845

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.77605	0.321
IL2-6/WTpooled	1.02417	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96164	1
IL12-4/WTpooled	1.04102	0.891
IL1-4/WTpooled	1.04545
WT/WTpooled	0.99962	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	1.24591	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.90305	1
DC3000/delta hrp 6h	1.05379	1
DC3000/delta hrp 12h	1.17924	1
DC3000/delta hrp 24h	1.13539	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.48522	0.06
DC3000 delta B/DC3000 delta AB	1.6295	0.095

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23319	1
Exp 36h	1.38108	0.693
Exp 60h	1.81402	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00664	1
Var 0h	0.90008	0.936
Var 12h I row2-row1	0.96314	0.856
Var 12h NI row2-row1	1.19955	0.235
Var 36h I row2-row1	1.22336	0.601
Var 36h NI row2-row1	0.92793	0.645
Var 60h I row2-row1	0.73944	0.439
Var 60h NI row2-row1	0.80144	0.69
Time course 0hI-0hNI	1.14638	0.63
Time course 12hI-12hNI	0.99957	1
Time course 36hI-36hNI	1.52256	0.005
Time course 60hI-60hNI	5.10955	0.008

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)	1.0965	0.541
transgenic ySAMdc/azygous control (breaker)	1.06682	1
transgenic ySAMdc/azygous control (red)	1.20231	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.24134	0.372

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57621	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09814	0.307
Manapal/WT (break)	1.11127	0.381
Manapal/WT (red)	N/A	N/A