Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05781	0.893
27DAP/17DAP	0.61594	0.151
39DAP/27DAP	1.2275	0.858
41DAP/39DAP	0.91422	0.828
42DAP/41DAP	0.89414	1
43DAP/42DAP	0.99047	0.934
47DAP/43DAP	0.86954	0.58
52DAP/47DAP	1.17727	0.957
57DAP/52DAP	0.98963	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88477	0.246
17DAP/reference	0.90402	0.129
27DAP/reference	0.89805	0.349
39DAP/reference	0.98386	0.734
41DAP/reference	0.87366	0.267
42DAP/reference	0.86061	0.016
43DAP/reference	0.89444	0.273
47DAP/reference	1.01474	1
52DAP/reference	1.07823	0.878
57DAP/reference	1.14123	0.141

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11901	0.536
27DAP/17DAP	0.92884	0.821
39DAP/27DAP	0.95058	0.692
41DAP/39DAP	0.93322	0.804
42DAP/41DAP	1.07141	0.935
43DAP/42DAP	1.11702	0.513
47DAP/43DAP	1.08875	0.508
52DAP/47DAP	1.05897	0.9
57DAP/52DAP	0.98243	0.721
57DAP/7DAP	1.24538	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91714	0.203
17DAP/reference	0.95671	0.295
27DAP/reference	0.99685	0.698
39DAP/reference	0.94336	0.307
41DAP/reference	0.99489	0.589
42DAP/reference	1.05338	0.686
43DAP/reference	1.0878	0.788
47DAP/reference	1.11263	0.152
52DAP/reference	0.9082	0.137
57DAP/reference	1.00125	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88031	0.306
17DAP/reference	0.7481	0.014
27DAP/reference	0.73256	0.1
39DAP/reference	0.81343	0.022
41DAP/reference	0.77759	0.022
42DAP/reference	0.8387	0.108
43DAP/reference	0.93017	0.344
47DAP/reference	0.97888	0.512
52DAP/reference	0.89361	0.171
57DAP/reference	0.89453	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91503	0.098
17DAP/reference	0.88578	0.203
27DAP/reference	0.94233	0.397
39DAP/reference	0.87168	0.028
41DAP/reference	1.02014	0.916
42DAP/reference	0.85685	0.108
43DAP/reference	0.90364	0.226
47DAP/reference	1.02005	0.82
52DAP/reference	0.95786	0.611
57DAP/reference	1.04657	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09695	0.966
26DAP/20DAP	0.96	1
34DAP/26DAP	0.86416	0.311
51DAP/34DAP	1.06991	0.719
52DAP/51DAP	1.01444	1
53DAP/52DAP	1.11257	0.623
55DAP/53DAP	1.11385	0.904
57DAP/55DAP	1.05032	0.914
62DAP/57DAP	0.94683	0.994
68DAP/62DAP	0.92413	0.787
68DAP/14DAP	2.51313	0.061

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.61793	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00635	0.908
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.03757	1
Ripe Pepper/Ripe Tomato	0.89729	0.293
Mature Eggplant/Ripe Tomato	0.6416	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01355	1
1-1-2/M82	0.87569	0.754
12-2/M82	0.9735	1
12-4/M82	1.00953	1
1-3/M82	0.82146	0.378
2-1-1/M82	1.02038	0.689
2-1/M82	N/A	N/A
2-6/M82	1.32779	0.505
3-2/M82	0.87183
4-1-1/M82	1.16314	1
4-1/M82	0.9832
4-3-2/M82	0.91934
4-3/M82	1.09237	1
5-3/M82	0.87719	1
6-2/M82	1.13867	1
6-3/M82	0.92344	1
7-1/M82	0.82032	0.803
7-2/M82	1.1428	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.37781
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.03942	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08881	0.921
DC3000/delta hrp 6h	1.34991	1
DC3000/delta hrp 12h	1.35803	1
DC3000/delta hrp 24h	1.13092	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98734	0.882
DC3000 delta B/DC3000 delta AB	1.37063	0.212

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92555	1
Exp 36h	1.16479	1
Exp 60h	0.87898	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06876	1
Var 0h	1.04506	1
Var 12h I row2-row1	1.02341	0.736
Var 12h NI row2-row1	1.126	0.235
Var 36h I row2-row1	1.09057	1
Var 36h NI row2-row1	1.5442	1
Var 60h I row2-row1	0.75149	0.285
Var 60h NI row2-row1	0.83092	0.63
Time course 0hI-0hNI	1.03483	1
Time course 12hI-12hNI	1.08637	0.467
Time course 36hI-36hNI	1.57025	0.005
Time course 60hI-60hNI	2.61011	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)	0.85123	0.26
transgenic ySAMdc/azygous control (breaker)	0.98754	1
transgenic ySAMdc/azygous control (red)	0.91848	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00823	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89848	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02964	0.087
Manapal/WT (break)	0.8399	1
Manapal/WT (red)	0.90861	0.36