Sol Genomics Network

clone(s) in cart (order)

Old browser version detected

This site is optimized for modern web browsers

Please upgrade your browser

Sorry!, some features may not work in outdated browsers

Sol Genomics Network

Search
- Organisms
- Loci & Genes
- Genome features
- Expression
- Accessions and Plots
- QTLs
- Markers
- BACs
- Unigenes
- ESTs and libraries
- Gene Families
- Insitu database
- Images
- People
- FAQ
Maps
- All Maps
- The New Comparative Viewer
- Comparative Viewer
- Submit a map
- Tomato
- Tomato-EXPEN 2000
- Tomato-Kazusa/SolCAP
- Tomato QTLs
- Tomato physical map
- Tomato FPC contig map
- Tomato IL map
- Tomato FISH map
- Tomato AGP map
- Pepper
- Pepper COSII map
- Pepper-AC99
- Pepper-FA03
- Eggplant
- Eggplant COSII map
- Eggplant-LXM 2002
- More Maps
- Potato-TXB 1992
- Tobacco SSR 2007
- Arabidopsis COSII
Genomes
- Sequenced Accessions
- Completed Genomes
- Tomato
- Potato
- Pepper
- Eggplant
- Solanum pennellii
- Solanum lycopersicoides
- Solanum pimpinellifolium
- Solanum lycopersicum var. cerasiforme
- Iochroma cyaneum
- Draft Genomes
- Nicotiana attenuata
- Nicotiana benthamiana
- Nicotiana tabacum
- Petunia axillaris
- Petunia inflata
- Solanum chilense
- Coffea humblotiana
- Resequencing projects
- Solanum lycopersicum inbreds
- 150 Tomato Genome Resequencing Project
- BGI Tomato 360 genomes
- Varitome Project
Projects
- Projects
- Tomato graph pangenome project
- Varitome project
- Nicotiana benthamiana BTI site
- 100 Tomato genomes project
- Tomato Immune Response Resequencing
- Previous Projects
- Solanaceae project (SOL)
- SOL-100 Project
- International Tomato Sequencing Project
- U.S. tomato sequencing project
Tools
- Sequence Analysis
- BLAST
- VIGS Tool
- Alignment Analyzer
- Tree Browser
- Motif Finder
- Mapping
- Genome Browser (Jbrowse)
- Comparative Map Viewer
- CAPS Designer
- solQTL: QTL Mapping
- Molecular Biology
- In Silico PCR
- Tomato Expression Atlas (TEA)
- Tomato Expression Database (TED)
- Systems Biology
- SolCyc Biochemical Pathways
- Coffee Interactomic Data
- SGN Ontology Browser
- Breeder Tools
- Breeders Toolbox
- Bulk Query
- FTP Site
- Download Gene Sequences
- Download Gene Sequences
- Clones, Arrays, Unigenes and BACs
- Unigene Converter
About
- About
- Contact
- Cite SGN
- Links
- Help
- FAQ
- Become SGN Editor
- Forum
- FTP data
- SlideShare
- Twitter
- Facebook

Advanced

This site uses cookies to provide logins and other features. Please accept the use of cookies by clicking Accept.

Expression Template: AFFX-BioB-3_at

Template Basic Information

Template name:	AFFX-BioB-3_at
Template type:	Probe Set
Platform:	Affymetrix GeneChip Tomato Genome Array
Internal db links:	data not available
External db links:	GenBank: AFFX-BioB-3

Probe Composition (20)

Probe name	Probe type	Template start coord	Template end coord	Spots
AFFX-BioB-3_at:ProbePair0	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair1	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair10	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair11	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair12	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair13	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair14	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair15	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair16	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair17	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair18	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair19	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair2	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair3	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair4	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair5	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair6	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair7	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair8	PM	data not available	data not available	data not available
AFFX-BioB-3_at:ProbePair9	PM	data not available	data not available	data not available

Graph: Expression Data by Experiment

Table: Expression Data by Experiment (24)

Experimental design name	Experiment name	Tissue	Experiment replicates	Replicates pValue<0.05	Mean	Median	SD	CV
Expression data from various tomato plant tissues	Gene expression data from Micro-Tom cotyledon	cotyledon	2	2	141.21	141.21	66.23	0.47
	Gene expression data from Aft mature green fruit flesh	endocarp	3	3	152.11	125.96	52.16	0.34
	Gene expression data from Line27859 red fruit flesh	endocarp	3	3	234.94	231.03	9.42	0.04
	Gene expression data from Micro-Tom mature green fruit flesh	endocarp	3	3	93.65	95.07	17.07	0.18
	Gene expression data from Micro-Tom yellow fruit flesh	endocarp	2	2	100.21	100.21	25.43	0.25
	Gene expression data from Aft mature green fruit peel	exocarp	3	3	127.72	124.78	8.96	0.07
	Gene expression data from Aft red fruit peel	exocarp	3	3	147.17	160.77	24.91	0.17
	Gene expression data from Line27859 mature green fruit peel	exocarp	3	3	108.60	108.96	10.48	0.10
	Gene expression data from Line27859 red fruit peel	exocarp	3	3	169.20	166.49	30.58	0.18
	Gene expression data from Micro-Tom mature green fruit peel	exocarp	3	3	141.13	142.71	18.77	0.13
	Gene expression data from Micro-Tom orange fruit peel	exocarp	2	2	131.13	131.13	18.33	0.14
	Gene expression data from Micro-Tom red fruit peel	exocarp	3	3	106.34	111.81	37.85	0.36
	Gene expression data from Micro-Tom yellow fruit peel	exocarp	2	2	135.84	135.84	4.37	0.03
	Gene expression data from Momotaro8 red fruit peel	exocarp	4	4	189.54	192.39	23.14	0.12
	Gene expression data from Micro-Tom hypocotyl	hypocotyl	2	2	135.73	135.73	29.48	0.22
	Gene expression data from Micro-Tom 3rd leaf	vascular leaf	2	2	159.43	159.43	18.56	0.12
	Gene expression data from all leaves of 3-week-old Micro-Tom plant	vascular leaf	3	3	193.72	197.24	32.12	0.17
	Gene expression data from all leaves of 5-week-old Micro-Tom plant	vascular leaf	3	3	247.55	240.16	21.03	0.08
	Gene expression data from Aft red fruit flesh	mesocarp	3	3	99.19	105.07	11.71	0.12
	Gene expression data from Line27859 mature green fruit flesh	mesocarp	3	3	143.74	145.90	10.28	0.07
	Gene expression data from Micro-Tom orange fruit flesh	mesocarp	2	2	148.80	148.80	66.43	0.45
	Gene expression data from Micro-Tom red fruit flesh	mesocarp	3	3	115.25	114.88	13.44	0.12
	Gene expression data from Momotaro8 red fruit flesh	mesocarp	4	4	193.78	195.56	108.96	0.56
	Gene expression data from Micro-Tom root	root	3	3	176.29	181.25	10.37	0.06

Expression Data by Targets (experiment replicates) (67)

Experiment name	Target name	normalized_signal	pVal_call	flag
Gene expression data from Micro-Tom cotyledon	GSM480171 extract 1	94.3789	4e-5	P
	GSM480170 extract 1	188.043	4e-5	P
Gene expression data from Aft mature green fruit flesh	GSM480200 extract 1	118.204	4e-5	P
	GSM480201 extract 1	125.963	4e-5	P
	GSM480202 extract 1	212.175	4e-5	P
Gene expression data from Line27859 red fruit flesh	GSM480215 extract 1	231.034	4e-5	P
	GSM480216 extract 1	228.113	4e-5	P
	GSM480217 extract 1	245.688	4e-5	P
Gene expression data from Micro-Tom mature green fruit flesh	GSM480182 extract 1	95.0673	4e-5	P
	GSM480180 extract 1	109.971	5e-5	P
	GSM480181 extract 1	75.9253	6e-5	P
Gene expression data from Micro-Tom yellow fruit flesh	GSM480183 extract 1	118.191	4e-5	P
	GSM480184 extract 1	82.2281	4e-5	P
Gene expression data from Aft mature green fruit peel	GSM480208 extract 1	120.599	4e-5	P
	GSM480206 extract 1	124.778	4e-5	P
	GSM480207 extract 1	137.788	4e-5	P
Gene expression data from Aft red fruit peel	GSM480209 extract 1	118.425	4e-5	P
	GSM480211 extract 1	162.32	4e-5	P
	GSM480210 extract 1	160.774	4e-5	P
Gene expression data from Line27859 mature green fruit peel	GSM480218 extract 1	97.9362	4e-5	P
	GSM480219 extract 1	118.896	4e-5	P
	GSM480220 extract 1	108.956	4e-5	P
Gene expression data from Line27859 red fruit peel	GSM480222 extract 1	140.061	4e-5	P
	GSM480221 extract 1	201.042	4e-5	P
	GSM480223 extract 1	166.493	4e-5	P
Gene expression data from Micro-Tom mature green fruit peel	GSM480190 extract 1	159.049	4e-5	P
	GSM480191 extract 1	142.714	4e-5	P
	GSM480192 extract 1	121.616	4e-5	P
Gene expression data from Micro-Tom orange fruit peel	GSM480196 extract 1	118.169	4e-5	P
	GSM480195 extract 1	144.087	4e-5	P
Gene expression data from Micro-Tom red fruit peel	GSM480197 extract 1	141.152	4e-5	P
	GSM480198 extract 1	111.808	4e-5	P
	GSM480199 extract 1	66.048	4e-5	P
Gene expression data from Micro-Tom yellow fruit peel	GSM480193 extract 1	132.753	4e-5	P
	GSM480194 extract 1	138.929	4e-5	P
Gene expression data from Momotaro8 red fruit peel	GSM480229 extract 1	187.88	5e-5	P
	GSM480228 extract 1	196.894	4e-5	P
	GSM480231 extract 1	159.007	4e-5	P
	GSM480230 extract 1	214.38	4e-5	P
Gene expression data from Micro-Tom hypocotyl	GSM480168 extract 1	156.575	4e-5	P
	GSM480169 extract 1	114.885	4e-5	P
Gene expression data from Micro-Tom 3rd leaf	GSM480173 extract 1	146.301	4e-5	P
	GSM480172 extract 1	172.552	4e-5	P
Gene expression data from all leaves of 3-week-old Micro-Tom plant	GSM480175 extract 1	197.237	4e-5	P
	GSM480174 extract 1	223.94	4e-5	P
	GSM480176 extract 1	159.985	4e-5	P
Gene expression data from all leaves of 5-week-old Micro-Tom plant	GSM480177 extract 1	240.163	4e-5	P
	GSM480178 extract 1	231.206	4e-5	P
	GSM480179 extract 1	271.278	4e-5	P
Gene expression data from Aft red fruit flesh	GSM480203 extract 1	105.068	4e-5	P
	GSM480205 extract 1	85.7103	4e-5	P
	GSM480204 extract 1	106.803	4e-5	P
Gene expression data from Line27859 mature green fruit flesh	GSM480213 extract 1	145.903	4e-5	P
	GSM480212 extract 1	132.559	4e-5	P
	GSM480214 extract 1	152.769	4e-5	P
Gene expression data from Micro-Tom orange fruit flesh	GSM480185 extract 1	101.823	4e-5	P
	GSM480186 extract 1	195.771	4e-5	P
Gene expression data from Micro-Tom red fruit flesh	GSM480187 extract 1	128.875	4e-5	P
	GSM480189 extract 1	114.881	4e-5	P
	GSM480188 extract 1	101.995	4e-5	P
Gene expression data from Momotaro8 red fruit flesh	GSM480224 extract 1	238.65	4e-5	P
	GSM480225 extract 1	318.289	4e-5	P
	GSM480226 extract 1	152.46	4e-5	P
	GSM480227 extract 1	65.7363	4e-5	P
Gene expression data from Micro-Tom root	GSM480167 extract 1	183.241	4e-5	P
	GSM480165 extract 1	164.363	4e-5	P
	GSM480166 extract 1	181.254	4e-5	P

Correlation analysis (0)

No correlation analysis was found associated to this template

Your Lists

Public Lists

List Contents

List Validation Report: Failed

Elements not found:

Optional: Add Missing Accessions to A List

Mismatched case

Click the Adjust Case button to align the case in the list with what is in the database.

Multiple mismatched case

Items listed here have mulitple case mismatches and must be fixed manually. If accessions need to be merged, contact the database directly.

List elements matching a synonym

Multiple synonym matches

Multiple synonym matches have to be resolved manually. Contact database administrators if necessary.

Fuzzy Search Results

Synonym Search Results

Create a New List from Unique Names:

Available Seedlots

Accessions	Seedlots
Accessions		Breeding Program	Seedlot Name	Contents	Seedlot Location	Count	Weight(g)

Create a New List from Selected Seedlots:

Manage Seedlots

Your Datasets

Public Datasets

Dataset Contents

Dataset Validation Failed

Elements not found:

Your Calendar

Having trouble viewing events on the calendar?
Are you associated with the breeding program you are interested in viewing?

Calendar Permissions

Add New Event

Project:

Event Type:

Start:

End:

Description:

Web URL:

http://www.

Event Info

Attribute	Value
Project Name:
Start Date:
End Date:
Event Type:
Event Description:
Event Web URL:

Edit Event

Project:

Event Type:

Start:

End:

Description:

Web URL:

Login

Forgot Username

If you've forgotten your username, enter your email address below. An email will be sent with any account username(s) associated with your email address.

Email Address

Reset Password

To reset your password, please enter your email address. A link will be sent to that address with a link that will enable you to reset your password.

Email Address

Create New User

Notice

Before creating a new account, please check if you already have an account using the directory search.
A link will be emailed to you. Please click on it to activate the account.
All fields are required.

First Name:

Last Name:

Organization:

Username:

Username must be at least 7 characters long.

Password:

Password must be at least 7 characters long and different from your username.

Confirm Password:

Password must be at least 7 characters long and different from your username.

Email Address:

An email will be sent to this address requiring you to confirm its receipt to activate your account.