Result

Search results for the GEO ID: GSE6288

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM144578

GPL81

wnt4_wt1

Metanephros

gene reported: wild-type (PMID: 18346943) strain: CD-1 sex: unknown developmental stage: E14.5 theiler stage: 22 somite count: NA developmental landmark: NA

>> Amplification protocol << Target Amplified manufacturer/kit: Affymetrix (Enzo) Target Amplified protocol: Affymetrix Standard Rounds of amplification: 1 URL: http://gudmap.hgu.mrc.ac.uk/gudmap/pages/mic_submission.html?id=GUDMAP:7050

Sample_geo_accession	GSM144578
Sample_status	Public on Nov 18 2006
Sample_submission_date	Nov 15 2006
Sample_last_update_date	Dec 29 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	pool size: 2 wild-type kidneys
Sample_treatment_protocol_ch1	Pooled sample: Yes
Sample_treatment_protocol_ch1	Dissection Method: Whole organ excision
Sample_treatment_protocol_ch1	Experimental Design: Wnt4 is required for renal vesicle (RV) induction. Therefore, RV and the derivatives (s-shaped body and eventually the mature nephron) are missing in Wnt4 mutants. At E14.5, these structures are present in wildtype kidneys. Transcriptional profile comparison between E14.5 wildtype and Wnt4 mutants therefore identify genes expressed in the RV and derivatives. Minimally pooled kidney samples were used as single biological replicates. CD-1 mice are mated overnight and examined the following morning for the presence of a copulatory plug. Presence of a plug is taken as day 0.5 post coitum. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are euthanized by decapitation with scissors. Fetal kidneys are removed from stage E14.5 embryos and stored in RNAlater at 4°C until RNA isolation (<4 days). Total RNA was isolated from these pools and subjected to a single round of amplification for use on Affymetrix arrays.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Disruption in liguid nitrogen, total RNA isolation with Qiagen Rneasy, followed by homogenization with QiaShredder columns (two 30ul elutions).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Affymetrix standard protocol
Sample_hyb_protocol	Amount labeled target hybridization to array: 15 ug
Sample_hyb_protocol	Hybridization/Wash/Stain protocol: EukGE-WS2v4
Sample_scan_protocol	Affymetrix standard protocol
Sample_data_processing	Analysis method: Affymetrix GCOS and Rosetta Resolver GCOS Tgt value: 500
Sample_platform_id	GPL81
Sample_contact_name	GUDMAP,,Developers
Sample_contact_email	gudmap-editors@gudmap.org
Sample_contact_phone	+44 131 3322471
Sample_contact_laboratory	GUDMAP Database Group
Sample_contact_institute	MRC Human Genetics Unit
Sample_contact_address	Crewe Road
Sample_contact_city	Edinburgh
Sample_contact_zip/postal_code	EH4 2XU
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM144nnn/GSM144578/suppl/GSM144578.CEL.gz
Sample_series_id	GSE6288
Sample_data_row_count	12488

GSM144579

GPL81

wnt4_wt2

Metanephros

gene reported: wild-type (PMID:18346943) strain: CD-1 sex: unknown developmental stage: E14.5 theiler stage: 22 somite count: NA developmental landmark: NA

Sample_geo_accession	GSM144579
Sample_status	Public on Nov 18 2006
Sample_submission_date	Nov 15 2006
Sample_last_update_date	Dec 29 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	pool size: 2 wild-type kidneys
Sample_treatment_protocol_ch1	Pooled sample: Yes
Sample_treatment_protocol_ch1	Dissection Method: Whole organ excision
Sample_treatment_protocol_ch1	Experimental Design: Wnt4 is required for renal vesicle (RV) induction. Therefore, RV and the derivatives (s-shaped body and eventually the mature nephron) are missing in Wnt4 mutants. At E14.5, these structures are present in wildtype kidneys. Transcriptional profile comparison between E14.5 wildtype and Wnt4 mutants therefore identify genes expressed in the RV and derivatives. Minimally pooled kidney samples were used as single biological replicates. CD-1 mice are mated overnight and examined the following morning for the presence of a copulatory plug. Presence of a plug is taken as day 0.5 post coitum. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are euthanized by decapitation with scissors. Fetal kidneys are removed from stage E14.5 embryos and stored in RNAlater at 4°C until RNA isolation (<4 days). Total RNA was isolated from these pools and subjected to a single round of amplification for use on Affymetrix arrays.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Disruption in liguid nitrogen, total RNA isolation with Qiagen Rneasy, followed by homogenization with QiaShredder columns (two 30ul elutions).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Affymetrix standard protocol
Sample_hyb_protocol	Amount labeled target hybridization to array: 15 ug
Sample_hyb_protocol	Hybridization/Wash/Stain protocol: EukGE-WS2v4
Sample_scan_protocol	Affymetrix standard protocol
Sample_data_processing	Analysis method: Affymetrix GCOS and Rosetta Resolver GCOS Tgt value: 500
Sample_platform_id	GPL81
Sample_contact_name	GUDMAP,,Developers
Sample_contact_email	gudmap-editors@gudmap.org
Sample_contact_phone	+44 131 3322471
Sample_contact_laboratory	GUDMAP Database Group
Sample_contact_institute	MRC Human Genetics Unit
Sample_contact_address	Crewe Road
Sample_contact_city	Edinburgh
Sample_contact_zip/postal_code	EH4 2XU
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM144nnn/GSM144579/suppl/GSM144579.CEL.gz
Sample_series_id	GSE6288
Sample_data_row_count	12488

GSM144580

GPL81

wnt4_wt3

Metanephros

gene reported: wild-type (PMID:18346943) strain: CD-1 sex: unknown developmental stage: E14.5 theiler stage: 22 somite count: NA developmental landmark: NA

Sample_geo_accession	GSM144580
Sample_status	Public on Nov 18 2006
Sample_submission_date	Nov 15 2006
Sample_last_update_date	Dec 29 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	pool size: 2 wild-type kidneys
Sample_treatment_protocol_ch1	Pooled sample: Yes
Sample_treatment_protocol_ch1	Dissection Method: Whole organ excision
Sample_treatment_protocol_ch1	Experimental Design: Wnt4 is required for renal vesicle (RV) induction. Therefore, RV and the derivatives (s-shaped body and eventually the mature nephron) are missing in Wnt4 mutants. At E14.5, these structures are present in wildtype kidneys. Transcriptional profile comparison between E14.5 wildtype and Wnt4 mutants therefore identify genes expressed in the RV and derivatives. Minimally pooled kidney samples were used as single biological replicates. CD-1 mice are mated overnight and examined the following morning for the presence of a copulatory plug. Presence of a plug is taken as day 0.5 post coitum. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are euthanized by decapitation with scissors. Fetal kidneys are removed from stage E14.5 embryos and stored in RNAlater at 4°C until RNA isolation (<4 days). Total RNA was isolated from these pools and subjected to a single round of amplification for use on Affymetrix arrays.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Disruption in liguid nitrogen, total RNA isolation with Qiagen Rneasy, followed by homogenization with QiaShredder columns (two 30ul elutions).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Affymetrix standard protocol
Sample_hyb_protocol	Amount labeled target hybridization to array: 15 ug
Sample_hyb_protocol	Hybridization/Wash/Stain protocol: EukGE-WS2v4
Sample_scan_protocol	Affymetrix standard protocol
Sample_data_processing	Analysis method: Affymetrix GCOS and Rosetta Resolver GCOS Tgt value: 500
Sample_platform_id	GPL81
Sample_contact_name	GUDMAP,,Developers
Sample_contact_email	gudmap-editors@gudmap.org
Sample_contact_phone	+44 131 3322471
Sample_contact_laboratory	GUDMAP Database Group
Sample_contact_institute	MRC Human Genetics Unit
Sample_contact_address	Crewe Road
Sample_contact_city	Edinburgh
Sample_contact_zip/postal_code	EH4 2XU
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM144nnn/GSM144580/suppl/GSM144580.CEL.gz
Sample_series_id	GSE6288
Sample_data_row_count	12488

GSM144581

GPL81

wnt4_wt4

Metanephros

gene reported: wild-type (PMID:18346943) strain: CD-1 sex: unknown developmental stage: E14.5 theiler stage: 22 somite count: NA developmental landmark: NA

Sample_geo_accession	GSM144581
Sample_status	Public on Nov 18 2006
Sample_submission_date	Nov 15 2006
Sample_last_update_date	Dec 29 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	pool size: 2 wild-type kidneys
Sample_treatment_protocol_ch1	Pooled sample: Yes
Sample_treatment_protocol_ch1	Dissection Method: Whole organ excision
Sample_treatment_protocol_ch1	Experimental Design: Wnt4 is required for renal vesicle (RV) induction. Therefore, RV and the derivatives (s-shaped body and eventually the mature nephron) are missing in Wnt4 mutants. At E14.5, these structures are present in wildtype kidneys. Transcriptional profile comparison between E14.5 wildtype and Wnt4 mutants therefore identify genes expressed in the RV and derivatives. Minimally pooled kidney samples were used as single biological replicates. CD-1 mice are mated overnight and examined the following morning for the presence of a copulatory plug. Presence of a plug is taken as day 0.5 post coitum. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are euthanized by decapitation with scissors. Fetal kidneys are removed from stage E14.5 embryos and stored in RNAlater at 4°C until RNA isolation (<4 days). Total RNA was isolated from these pools and subjected to a single round of amplification for use on Affymetrix arrays.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Disruption in liguid nitrogen, total RNA isolation with Qiagen Rneasy, followed by homogenization with QiaShredder columns (two 30ul elutions).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Affymetrix standard protocol
Sample_hyb_protocol	Amount labeled target hybridization to array: 15 ug
Sample_hyb_protocol	Hybridization/Wash/Stain protocol: EukGE-WS2v4
Sample_scan_protocol	Affymetrix standard protocol
Sample_data_processing	Analysis method: Affymetrix GCOS and Rosetta Resolver GCOS Tgt value: 500
Sample_platform_id	GPL81
Sample_contact_name	GUDMAP,,Developers
Sample_contact_email	gudmap-editors@gudmap.org
Sample_contact_phone	+44 131 3322471
Sample_contact_laboratory	GUDMAP Database Group
Sample_contact_institute	MRC Human Genetics Unit
Sample_contact_address	Crewe Road
Sample_contact_city	Edinburgh
Sample_contact_zip/postal_code	EH4 2XU
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM144nnn/GSM144581/suppl/GSM144581.CEL.gz
Sample_series_id	GSE6288
Sample_data_row_count	12488

GSM144582

GPL81

wnt4_mut1

Metanephros

gene reported: Wnt4tm1Amc / MGI:1857453 / PMID: 18346943 strain: 129 sex: unknown developmental stage: E14.5 theiler stage: 22 somite count: NA developmental landmark: NA

Sample_geo_accession	GSM144582
Sample_status	Public on Nov 18 2006
Sample_submission_date	Nov 15 2006
Sample_last_update_date	Dec 29 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	pool size: 8-10 Wnt4 mutant kidneys (pooled from 4-5 mutant embryos)
Sample_treatment_protocol_ch1	Pooled sample: Yes
Sample_treatment_protocol_ch1	Dissection Method: Whole organ excision
Sample_treatment_protocol_ch1	Experimental Design: Wnt4 is required for renal vesicle (RV) induction. Therefore, RV and the derivatives (s-shaped body and eventually the mature nephron) are missing in Wnt4 mutants. At E14.5, these structures are present in wildtype kidneys. Transcriptional profile comparison between E14.5 wildtype and Wnt4 mutants therefore identify genes expressed in the RV and derivatives. Minimally pooled kidney samples were used as single biological replicates. CD-1 mice are mated overnight and examined the following morning for the presence of a copulatory plug. Presence of a plug is taken as day 0.5 post coitum. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are euthanized by decapitation with scissors. Fetal kidneys are removed from stage E14.5 embryos and stored in RNAlater at 4°C until RNA isolation (<4 days). Total RNA was isolated from these pools and subjected to a single round of amplification for use on Affymetrix arrays.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Disruption in liguid nitrogen, total RNA isolation with Qiagen Rneasy, followed by homogenization with QiaShredder columns (two 30ul elutions).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Affymetrix standard protocol
Sample_hyb_protocol	Amount labeled target hybridization to array: 15 ug
Sample_hyb_protocol	Hybridization/Wash/Stain protocol: EukGE-WS2v4
Sample_scan_protocol	Affymetrix standard protocol
Sample_data_processing	Analysis method: Affymetrix GCOS and Rosetta Resolver GCOS Tgt value: 500
Sample_platform_id	GPL81
Sample_contact_name	GUDMAP,,Developers
Sample_contact_email	gudmap-editors@gudmap.org
Sample_contact_phone	+44 131 3322471
Sample_contact_laboratory	GUDMAP Database Group
Sample_contact_institute	MRC Human Genetics Unit
Sample_contact_address	Crewe Road
Sample_contact_city	Edinburgh
Sample_contact_zip/postal_code	EH4 2XU
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM144nnn/GSM144582/suppl/GSM144582.CEL.gz
Sample_series_id	GSE6288
Sample_data_row_count	12488

GSM144583

GPL81

wnt4_mut2

Metanephros

gene reported: Wnt4tm1Amc / MGI:1857453 / PMID: 18346943 strain: 129 sex: unknown developmental stage: E14.5 theiler stage: 22 somite count: NA developmental landmark: NA

Sample_geo_accession	GSM144583
Sample_status	Public on Nov 18 2006
Sample_submission_date	Nov 15 2006
Sample_last_update_date	Dec 29 2010
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	pool size: 8-10 Wnt4 mutant kidneys (pooled from 4-5 mutant embryos)
Sample_treatment_protocol_ch1	Pooled sample: Yes
Sample_treatment_protocol_ch1	Dissection Method: Whole organ excision
Sample_treatment_protocol_ch1	Experimental Design: Wnt4 is required for renal vesicle (RV) induction. Therefore, RV and the derivatives (s-shaped body and eventually the mature nephron) are missing in Wnt4 mutants. At E14.5, these structures are present in wildtype kidneys. Transcriptional profile comparison between E14.5 wildtype and Wnt4 mutants therefore identify genes expressed in the RV and derivatives. Minimally pooled kidney samples were used as single biological replicates. CD-1 mice are mated overnight and examined the following morning for the presence of a copulatory plug. Presence of a plug is taken as day 0.5 post coitum. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are euthanized by decapitation with scissors. Fetal kidneys are removed from stage E14.5 embryos and stored in RNAlater at 4°C until RNA isolation (<4 days). Total RNA was isolated from these pools and subjected to a single round of amplification for use on Affymetrix arrays.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Disruption in liguid nitrogen, total RNA isolation with Qiagen Rneasy, followed by homogenization with QiaShredder columns (two 30ul elutions).
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Affymetrix standard protocol
Sample_hyb_protocol	Amount labeled target hybridization to array: 15 ug
Sample_hyb_protocol	Hybridization/Wash/Stain protocol: EukGE-WS2v4
Sample_scan_protocol	Affymetrix standard protocol
Sample_data_processing	Analysis method: Affymetrix GCOS and Rosetta Resolver GCOS Tgt value: 500
Sample_platform_id	GPL81
Sample_contact_name	GUDMAP,,Developers
Sample_contact_email	gudmap-editors@gudmap.org
Sample_contact_phone	+44 131 3322471
Sample_contact_laboratory	GUDMAP Database Group
Sample_contact_institute	MRC Human Genetics Unit
Sample_contact_address	Crewe Road
Sample_contact_city	Edinburgh
Sample_contact_zip/postal_code	EH4 2XU
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM144nnn/GSM144583/suppl/GSM144583.CEL.gz
Sample_series_id	GSE6288
Sample_data_row_count	12488

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