Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.16.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02772	0.901
27DAP/17DAP	1.22997	0.804
39DAP/27DAP	1.12701	0.885
41DAP/39DAP	0.88943	0.552
42DAP/41DAP	0.91953	1
43DAP/42DAP	1.04543	1
47DAP/43DAP	1.10509	0.793
52DAP/47DAP	1.07752	0.902
57DAP/52DAP	1.01785	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97272	0.526
17DAP/reference	0.92939	0.368
27DAP/reference	1.06499	0.365
39DAP/reference	0.91298	0.24
41DAP/reference	0.86052	0.341
42DAP/reference	0.83106	0.008
43DAP/reference	0.92841	0.222
47DAP/reference	0.90653	0.098
52DAP/reference	1.1165	0.388
57DAP/reference	1.12626	0.211

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26992	0.728
27DAP/17DAP	0.83167	0.614
39DAP/27DAP	0.90262	0.477
41DAP/39DAP	1.12222	0.623
42DAP/41DAP	0.83271	0.329
43DAP/42DAP	0.9608	0.729
47DAP/43DAP	1.2157	0.88
52DAP/47DAP	1.05883	0.987
57DAP/52DAP	1.7247	0.143
57DAP/7DAP	1.97827	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79637	0.073
17DAP/reference	0.8505	0.064
27DAP/reference	0.75852	0.017
39DAP/reference	0.8469	0.126
41DAP/reference	0.82083	0.06
42DAP/reference	0.94668	0.32
43DAP/reference	0.92219	0.23
47DAP/reference	0.9825	0.671
52DAP/reference	0.76342	0.043
57DAP/reference	0.90553	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03729	0.943
17DAP/reference	0.89107	0.102
27DAP/reference	0.98102	0.554
39DAP/reference	0.91691	0.195
41DAP/reference	0.82629	0.112
42DAP/reference	0.87876	0.135
43DAP/reference	1.09119	0.611
47DAP/reference	0.88242	0.05
52DAP/reference	0.93747	0.156
57DAP/reference	0.81973	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77735	0.032
17DAP/reference	1.01143	0.9
27DAP/reference	0.92951	0.416
39DAP/reference	0.91476	0.271
41DAP/reference	0.87024	0.107
42DAP/reference	0.91925	0.361
43DAP/reference	0.80864	0.095
47DAP/reference	0.91549	0.174
52DAP/reference	0.90579	0.351
57DAP/reference	0.87759	0.118

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.34347	0.966
26DAP/20DAP	0.81658
34DAP/26DAP	1.59271	1
51DAP/34DAP	1.20686	0.96
52DAP/51DAP	0.89648	1
53DAP/52DAP	1.47882	0.261
55DAP/53DAP	0.96748	0.761
57DAP/55DAP	0.89302	0.587
62DAP/57DAP	0.92121	0.681
68DAP/62DAP	1.26905	0.523
68DAP/14DAP	0.90479	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89012	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.7752	0.072
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	6.22111
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.95736
12-2/M82	N/A	N/A
12-4/M82	0.85605
1-3/M82	0.63664
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	0.83034	1
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.00254
4-3/M82	N/A	N/A
5-3/M82	0.98119
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.93857
7-2/M82	1.09671	0.324
9-3-2/M82	0.95787	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.30443
IL2-6/WTpooled	0.83353	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16514	1
IL12-4/WTpooled	1.55565	0.553
IL1-4/WTpooled	0.84712
WT/WTpooled	0.97163	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	1.07256	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05208	1
DC3000/delta hrp 24h	1.00576	1

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	1.47769	1
Exp 36h	N/A	N/A
Exp 60h	1.29474	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03951	1
Var 0h	10.1305	0.936
Var 12h I row2-row1	0.75868	0.506
Var 12h NI row2-row1	0.59887	0.394
Var 36h I row2-row1	0.95413	1
Var 36h NI row2-row1	0.73571	0.482
Var 60h I row2-row1	0.97656	0.832
Var 60h NI row2-row1	0.63559	0.318
Time course 0hI-0hNI	1.06598	0.486
Time course 12hI-12hNI	0.91435	0.501
Time course 36hI-36hNI	1.36655	0.89
Time course 60hI-60hNI	1.49028	1

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)	3.70767	0.455
transgenic ySAMdc/azygous control (breaker)	8.57121	0.166
transgenic ySAMdc/azygous control (red)	1.55987	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03494	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11554	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59941	0.307
Manapal/WT (break)	0.97846	1
Manapal/WT (red)	1.13819	1