Result

Search results for the GEO ID: GSE18632

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Title

Source name

Description

Characteristics

GSM463015

GPL570

HEK293E cells, scrambled siRNA, replicate 1

HEK cells transfected with scrambled siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463015
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463015/suppl/GSM463015.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

GSM463016

GPL570

HEK293E cells, scrambled siRNA, replicate 2

HEK cells transfected with scrambled siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463016
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463016/suppl/GSM463016.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

GSM463017

GPL570

HEK293E cells, scrambled siRNA, replicate 3

HEK cells transfected with scrambled siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463017
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463017/suppl/GSM463017.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

GSM463018

GPL570

HEK293E cells, scrambled siRNA, replicate 4

HEK cells transfected with scrambled siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463018
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463018/suppl/GSM463018.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

GSM463019

GPL570

HEK293E cells, TDP-43 siRNA, replicate 1

HEK cells transfected with TDP-43 siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463019
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463019/suppl/GSM463019.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

GSM463020

GPL570

HEK293E cells, TDP-43 siRNA, replicate 2

HEK cells transfected with TDP-43 siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463020
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463020/suppl/GSM463020.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

GSM463021

GPL570

HEK293E cells, TDP-43 siRNA, replicate 3

HEK cells transfected with TDP-43 siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463021
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463021/suppl/GSM463021.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

GSM463022

GPL570

HEK293E cells, TDP-43 siRNA, replicate 4

HEK cells transfected with TDP-43 siRNA, 24h after transfection

cell line: HEK293E

Sample_geo_accession	GSM463022
Sample_status	Public on Oct 20 2009
Sample_submission_date	Oct 19 2009
Sample_last_update_date	Oct 19 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells were transiently transfected three consecutive days using HiPerfect with 5nmol scrambled (both Qiagen) or TDP-specific siRNAs (5’-CAATAGCAATAGACAGTTA-3’) and cultivated for 24h.
Sample_growth_protocol_ch1	HEK293E cells were grown in Dulbecco’s modified Eagle medium (DMEM) (Biochrom) supplemented with 10% fetal bovine serum (PAA) at 37°C under humidified 5% CO2/air
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	RNA was extracted by using RNeasy Mini Kit (Qiagen) following manufacturers instructions for animal cells.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip U133 Plus 2.0 Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Sample_scan_protocol	GeneChips were scanned using the Affymetrix GCS3000 gene chip scanner.
Sample_data_processing	The data were analysed using GC-RMA for background correction, normalization and probe summarization using the Bioconductor package gcrma with default values.
Sample_platform_id	GPL570
Sample_contact_name	Michael,H.,Walter
Sample_contact_email	michael.walter@med.uni-tuebingen.de, michael.walter@microarray-facility.com
Sample_contact_phone	+4970712983210
Sample_contact_fax	+497071295228
Sample_contact_laboratory	The Microarray Facility Tübingen
Sample_contact_department	Department of Medical Genetics
Sample_contact_institute	University of Tuebingen
Sample_contact_address	Calwer Str. 7
Sample_contact_city	Tuebingen
Sample_contact_zip/postal_code	72076
Sample_contact_country	Germany
Sample_contact_web_link	www.mft-services.de
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM463nnn/GSM463022/suppl/GSM463022.CEL.gz
Sample_series_id	GSE18632
Sample_data_row_count	54675

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