Result

Search results for the GEO ID: GSE35555

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM870433

GPL1355

Control group

Kidneys from control recipient group

treatment: normal saline tissue: Kidney Sex: Male weight: 370-508 g strain: Wistar

Gene expression data from donor kidney after 5 hours 43 minutes ± 21 minutes post transplantation

Sample_geo_accession	GSM870433
Sample_status	Public on Feb 06 2012
Sample_submission_date	Feb 05 2012
Sample_last_update_date	Feb 06 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	Animals were exsanguinated under schedule 1 of the animal experimentation act 1976. The animals were left for 20 minutes to simulate the period of primary warm ischemia suffered by organs in DCD donors. The left kidney was then removed and flushed. The kidney was then stored for a period of on average 17±0.7 hours in cold University of Wisconsin (UW) organ preservation solution. After this storage period ischemia reperfusion injury was simulated by connecting the kidney to the femoral artery of a live animal under anaesthesia for a period of on average 5 hours 43 minutes ± 21 minutes. heparin was not used as an anti-coagulant to prevent interernce with data. Control animal( KID-C, n=7) were given an infusion of normal saline (1ml hr-1) and test animals (n=7 each group) were given an infusion of peptide 2 (KID-P) at a concentration of either 0.5 mg ml-1 or heparin (KID-H) infused at concentration 100 U ml-1 hr-1. After the period of reperfusion the kidneys were removed. Half of the kidney was fixed for immunohistochemical analysis and half was used to extract RNA for gene expression analysis
Sample_growth_protocol_ch1	Animals were housed and fed under normal conditions prior to experimental treatments
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction according to manufactureres instructions. The RNA was stored in 1X RNA sequre storage solution (Ambion). Due to a restriction in funding available the RNA from three kidneys from the control, heparin and peptide treated groups were pooled in an equimolar ratio to be used for labelling and hybridisation. Changes in gene expression are to be statistically verified by Q-PCR performed of RNA from individual recipients.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using an Affymetrix genechip scanner.
Sample_data_processing	Data was processed using GCRMA from simpleaffy (BioConductor)
Sample_platform_id	GPL1355
Sample_contact_name	Noel,Mark,Carter
Sample_contact_email	noel.carter@sunderland.ac.uk
Sample_contact_phone	+441915152979
Sample_contact_fax	+441915153405
Sample_contact_laboratory	Applied Immunobiology
Sample_contact_department	Pharmacy, Health and Wellbeing
Sample_contact_institute	University of Sunderland
Sample_contact_address	Wharnecliffe St
Sample_contact_city	Sunderland
Sample_contact_state	Tyne and Wear
Sample_contact_zip/postal_code	SR1 3SD
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM870nnn/GSM870433/suppl/GSM870433_KID-C.CEL.gz
Sample_series_id	GSE35555
Sample_data_row_count	31099

GSM870434

GPL1355

Heparin treated group

Kidneys from recipient group treated with heparin

treatment: heparin tissue: Kidney Sex: Male weight: 370-508 g strain: Wistar

Gene expression data from donor kidney after 5 hours 43 minutes ± 21 minutes post transplantation

Sample_geo_accession	GSM870434
Sample_status	Public on Feb 06 2012
Sample_submission_date	Feb 05 2012
Sample_last_update_date	Feb 06 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	Animals were exsanguinated under schedule 1 of the animal experimentation act 1976. The animals were left for 20 minutes to simulate the period of primary warm ischemia suffered by organs in DCD donors. The left kidney was then removed and flushed. The kidney was then stored for a period of on average 17±0.7 hours in cold University of Wisconsin (UW) organ preservation solution. After this storage period ischemia reperfusion injury was simulated by connecting the kidney to the femoral artery of a live animal under anaesthesia for a period of on average 5 hours 43 minutes ± 21 minutes. heparin was not used as an anti-coagulant to prevent interernce with data. Control animal( KID-C, n=7) were given an infusion of normal saline (1ml hr-1) and test animals (n=7 each group) were given an infusion of peptide 2 (KID-P) at a concentration of either 0.5 mg ml-1 or heparin (KID-H) infused at concentration 100 U ml-1 hr-1. After the period of reperfusion the kidneys were removed. Half of the kidney was fixed for immunohistochemical analysis and half was used to extract RNA for gene expression analysis
Sample_growth_protocol_ch1	Animals were housed and fed under normal conditions prior to experimental treatments
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction according to manufactureres instructions. The RNA was stored in 1X RNA sequre storage solution (Ambion). Due to a restriction in funding available the RNA from three kidneys from the control, heparin and peptide treated groups were pooled in an equimolar ratio to be used for labelling and hybridisation. Changes in gene expression are to be statistically verified by Q-PCR performed of RNA from individual recipients.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using an Affymetrix genechip scanner.
Sample_data_processing	Data was processed using GCRMA from simpleaffy (BioConductor)
Sample_platform_id	GPL1355
Sample_contact_name	Noel,Mark,Carter
Sample_contact_email	noel.carter@sunderland.ac.uk
Sample_contact_phone	+441915152979
Sample_contact_fax	+441915153405
Sample_contact_laboratory	Applied Immunobiology
Sample_contact_department	Pharmacy, Health and Wellbeing
Sample_contact_institute	University of Sunderland
Sample_contact_address	Wharnecliffe St
Sample_contact_city	Sunderland
Sample_contact_state	Tyne and Wear
Sample_contact_zip/postal_code	SR1 3SD
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM870nnn/GSM870434/suppl/GSM870434_KID-H.CEL.gz
Sample_series_id	GSE35555
Sample_data_row_count	31099

GSM870435

GPL1355

Peptide treated group

Kidneys from recipient group treated with Peptide

treatment: peptide 2 tissue: Kidney Sex: Male weight: 370-508 g strain: Wistar

Gene expression data from donor kidney after 5 hours 43 minutes ± 21 minutes post transplantation

Sample_geo_accession	GSM870435
Sample_status	Public on Feb 06 2012
Sample_submission_date	Feb 05 2012
Sample_last_update_date	Feb 06 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Rattus norvegicus
Sample_taxid_ch1	10116
Sample_treatment_protocol_ch1	Animals were exsanguinated under schedule 1 of the animal experimentation act 1976. The animals were left for 20 minutes to simulate the period of primary warm ischemia suffered by organs in DCD donors. The left kidney was then removed and flushed. The kidney was then stored for a period of on average 17±0.7 hours in cold University of Wisconsin (UW) organ preservation solution. After this storage period ischemia reperfusion injury was simulated by connecting the kidney to the femoral artery of a live animal under anaesthesia for a period of on average 5 hours 43 minutes ± 21 minutes. heparin was not used as an anti-coagulant to prevent interernce with data. Control animal( KID-C, n=7) were given an infusion of normal saline (1ml hr-1) and test animals (n=7 each group) were given an infusion of peptide 2 (KID-P) at a concentration of either 0.5 mg ml-1 or heparin (KID-H) infused at concentration 100 U ml-1 hr-1. After the period of reperfusion the kidneys were removed. Half of the kidney was fixed for immunohistochemical analysis and half was used to extract RNA for gene expression analysis
Sample_growth_protocol_ch1	Animals were housed and fed under normal conditions prior to experimental treatments
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Trizol extraction according to manufactureres instructions. The RNA was stored in 1X RNA sequre storage solution (Ambion). Due to a restriction in funding available the RNA from three kidneys from the control, heparin and peptide treated groups were pooled in an equimolar ratio to be used for labelling and hybridisation. Changes in gene expression are to be statistically verified by Q-PCR performed of RNA from individual recipients.
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Sample_scan_protocol	GeneChips were scanned using an Affymetrix genechip scanner.
Sample_data_processing	Data was processed using GCRMA from simpleaffy (BioConductor)
Sample_platform_id	GPL1355
Sample_contact_name	Noel,Mark,Carter
Sample_contact_email	noel.carter@sunderland.ac.uk
Sample_contact_phone	+441915152979
Sample_contact_fax	+441915153405
Sample_contact_laboratory	Applied Immunobiology
Sample_contact_department	Pharmacy, Health and Wellbeing
Sample_contact_institute	University of Sunderland
Sample_contact_address	Wharnecliffe St
Sample_contact_city	Sunderland
Sample_contact_state	Tyne and Wear
Sample_contact_zip/postal_code	SR1 3SD
Sample_contact_country	United Kingdom
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM870nnn/GSM870435/suppl/GSM870435_KID-P.CEL.gz
Sample_series_id	GSE35555
Sample_data_row_count	31099

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