Result

Search results for the GEO ID: GSE36671

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Title

Source name

Description

Characteristics

GSM898360

GPL1355

Cold perfusion only

Kidneys from cold perfusion group

tissue: Kidney Sex: Male weight: 300-480 g strain: Wistar

Gene expression data from donor kidney after 3 hours hypothermic machine perfusion with cold University of Wisconsin (UW) solution

Sample_geo_accession	GSM898360
Sample_status	Public on Mar 22 2012
Sample_submission_date	Mar 21 2012
Sample_last_update_date	Mar 22 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 29 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 preserved by hypothermic machine perfusion for a period of 3 hours in cold University of Wisconsin (UW) organ preservation solution. After this storage period ischemia reperfusion injury was simulated by warm perfusion with oxygenated modified Krebs-Henseleit buffer. Control animal (n=3) were machine perfused for 3 hours using cold UW preservation solution and test animals (n=3 each group) were further perfused with warm oxygenated modified Krebs-Henseleit buffer for 30 minutes. In the treated groups, perfusates were supplemented with either low molecular weight heparin or PPS both during the cold and warm perfusion at a final concentration of 10 IU ml-1. After the period of warm oxygenated perfusion the kidneys were removed and 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 secure storage solution (Ambion). Due to a restriction in funding available the RNA from three kidneys from the control, warm, heparin and PPS 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 kidneys.
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/GSM898nnn/GSM898360/suppl/GSM898360_UR.CEL.gz
Sample_series_id	GSE36671
Sample_data_row_count	31099

GSM898361

GPL1355

Cold and warm perfusion

Kidneys from warm perfusion group

tissue: Kidney Sex: Male weight: 300-480 g strain: Wistar

Gene expression data from donor kidney after 3 hours hypothermic machine perfusion with cold UW solution followed by 30 minutes of oxygenated warm perfusion with modified Krebs-Henseleit buffer

Sample_geo_accession	GSM898361
Sample_status	Public on Mar 22 2012
Sample_submission_date	Mar 21 2012
Sample_last_update_date	Mar 22 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 29 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 preserved by hypothermic machine perfusion for a period of 3 hours in cold University of Wisconsin (UW) organ preservation solution. After this storage period ischemia reperfusion injury was simulated by warm perfusion with oxygenated modified Krebs-Henseleit buffer. Control animal (n=3) were machine perfused for 3 hours using cold UW preservation solution and test animals (n=3 each group) were further perfused with warm oxygenated modified Krebs-Henseleit buffer for 30 minutes. In the treated groups, perfusates were supplemented with either low molecular weight heparin or PPS both during the cold and warm perfusion at a final concentration of 10 IU ml-1. After the period of warm oxygenated perfusion the kidneys were removed and 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 secure storage solution (Ambion). Due to a restriction in funding available the RNA from three kidneys from the control, warm, heparin and PPS 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 kidneys.
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/GSM898nnn/GSM898361/suppl/GSM898361_UW.CEL.gz
Sample_series_id	GSE36671
Sample_data_row_count	31099

GSM898362

GPL1355

Cold and warm perfusion supplemented with heparin

Kidneys from heparin group

tissue: Kidney Sex: Male weight: 300-480 g strain: Wistar

Gene expression data from donor kidney after 3 hours hypothermic machine perfusion with cold UW solution (supplemented with heparin) followed by 30 minutes of oxygenated warm perfusion with modified Krebs-Henseleit buffer (supplemented with heparin)

Sample_geo_accession	GSM898362
Sample_status	Public on Mar 22 2012
Sample_submission_date	Mar 21 2012
Sample_last_update_date	Mar 22 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 29 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 preserved by hypothermic machine perfusion for a period of 3 hours in cold University of Wisconsin (UW) organ preservation solution. After this storage period ischemia reperfusion injury was simulated by warm perfusion with oxygenated modified Krebs-Henseleit buffer. Control animal (n=3) were machine perfused for 3 hours using cold UW preservation solution and test animals (n=3 each group) were further perfused with warm oxygenated modified Krebs-Henseleit buffer for 30 minutes. In the treated groups, perfusates were supplemented with either low molecular weight heparin or PPS both during the cold and warm perfusion at a final concentration of 10 IU ml-1. After the period of warm oxygenated perfusion the kidneys were removed and 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 secure storage solution (Ambion). Due to a restriction in funding available the RNA from three kidneys from the control, warm, heparin and PPS 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 kidneys.
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/GSM898nnn/GSM898362/suppl/GSM898362_HEP.CEL.gz
Sample_series_id	GSE36671
Sample_data_row_count	31099

GSM898363

GPL1355

Cold and warm perfusion supplemented with PPS

Kidneys from PPS group

tissue: Kidney Sex: Male weight: 300-480 g strain: Wistar

Gene expression data from donor kidney after 3 hours hypothermic machine perfusion with cold UW solution (supplemented with PPS) followed by 30 minutes of oxygenated warm perfusion with modified Krebs-Henseleit buffer (supplemented with PPS)

Sample_geo_accession	GSM898363
Sample_status	Public on Mar 22 2012
Sample_submission_date	Mar 21 2012
Sample_last_update_date	Mar 22 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 29 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 preserved by hypothermic machine perfusion for a period of 3 hours in cold University of Wisconsin (UW) organ preservation solution. After this storage period ischemia reperfusion injury was simulated by warm perfusion with oxygenated modified Krebs-Henseleit buffer. Control animal (n=3) were machine perfused for 3 hours using cold UW preservation solution and test animals (n=3 each group) were further perfused with warm oxygenated modified Krebs-Henseleit buffer for 30 minutes. In the treated groups, perfusates were supplemented with either low molecular weight heparin or PPS both during the cold and warm perfusion at a final concentration of 10 IU ml-1. After the period of warm oxygenated perfusion the kidneys were removed and 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 secure storage solution (Ambion). Due to a restriction in funding available the RNA from three kidneys from the control, warm, heparin and PPS 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 kidneys.
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/GSM898nnn/GSM898363/suppl/GSM898363_PPS.CEL.gz
Sample_series_id	GSE36671
Sample_data_row_count	31099

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