Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14131	0.755
27DAP/17DAP	1.06504	0.92
39DAP/27DAP	0.79155	0.414
41DAP/39DAP	1.0953	0.833
42DAP/41DAP	1.74537	0.642
43DAP/42DAP	1.0504	1
47DAP/43DAP	1.16977	0.277
52DAP/47DAP	1.07245	0.982
57DAP/52DAP	1.45331	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97923	0.562
17DAP/reference	1.26036	0.035
27DAP/reference	0.99768	0.867
39DAP/reference	1.18836	0.093
41DAP/reference	1.10476	0.451
42DAP/reference	0.90203	0.041
43DAP/reference	1.04172	0.678
47DAP/reference	0.95144	0.224
52DAP/reference	0.88405	0.093
57DAP/reference	0.97878	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00378	0.899
27DAP/17DAP	1.00895	1
39DAP/27DAP	1.11009	0.534
41DAP/39DAP	1.05105	1
42DAP/41DAP	0.97704	0.757
43DAP/42DAP	1.07712	0.627
47DAP/43DAP	0.9711	0.857
52DAP/47DAP	1.02038	0.97
57DAP/52DAP	0.79921	0.339
57DAP/7DAP	1.05829	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91455	0.1
17DAP/reference	0.89958	0.021
27DAP/reference	0.88004	0.01
39DAP/reference	0.92237	0.049
41DAP/reference	0.94243	0.153
42DAP/reference	0.95728	0.169
43DAP/reference	0.90996	0.013
47DAP/reference	0.81702	0.044
52DAP/reference	0.88176	0.012
57DAP/reference	0.89364	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12352	0.491
17DAP/reference	1.03303	1
27DAP/reference	0.88806	0.203
39DAP/reference	0.78353	0.019
41DAP/reference	0.86002	0.048
42DAP/reference	0.92126	0.212
43DAP/reference	1.31746	0.128
47DAP/reference	1.07424	0.621
52DAP/reference	0.96156	0.407
57DAP/reference	0.97313	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10787	0.311
17DAP/reference	1.07339	0.522
27DAP/reference	0.98435	0.594
39DAP/reference	1.02422	0.858
41DAP/reference	1.01231	1
42DAP/reference	0.97103	0.552
43DAP/reference	0.84361	0.061
47DAP/reference	1.09704	0.265
52DAP/reference	0.92699	0.464
57DAP/reference	0.86584	0.134

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07034	0.966
26DAP/20DAP	1.1534	0.806
34DAP/26DAP	1.02927	1
51DAP/34DAP	0.85669	0.508
52DAP/51DAP	1.42735	0.467
53DAP/52DAP	0.94292	0.824
55DAP/53DAP	1.05768	0.826
57DAP/55DAP	0.96397	0.828
62DAP/57DAP	1.10529	0.767
68DAP/62DAP	0.95892	0.81
68DAP/14DAP	1.17117	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08311	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.6784
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.64394
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.13052
1-3/M82	0.51543	0.376
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.85987
3-2/M82	0.85408
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.88513	0.642
6-2/M82	N/A	N/A
6-3/M82	1.00878	1
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94074	0.321
IL2-6/WTpooled	0.87887	1
IL7-5/WTpooled	1.04679	0.65
IL7-3/WTpooled	0.95168	1
IL12-4/WTpooled	0.98686	1
IL1-4/WTpooled	0.93142	0.402
WT/WTpooled	0.90695	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	1.00565	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.92143	1
DC3000/delta hrp 24h	1.02731	0.76

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	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	0.93885	1
Var 0h	0.70877	0.936
Var 12h I row2-row1	1.31835	0.406
Var 12h NI row2-row1	1.11985	1
Var 36h I row2-row1	0.88799	0.805
Var 36h NI row2-row1	0.55024	0.645
Var 60h I row2-row1	1.13224	0.562
Var 60h NI row2-row1	0.82567	0.818
Time course 0hI-0hNI	1.07374	0.799
Time course 12hI-12hNI	1.40763	0.461
Time course 36hI-36hNI	0.85407	0.099
Time course 60hI-60hNI	1.01	0.096

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)	3.06034	0.162
transgenic ySAMdc/azygous control (red)	1.14906	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95993	0.153

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90626	0.431

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)	0.80985	0.333
Manapal/WT (red)	1.02166	1