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Sample GSM1017524 Query DataSets for GSM1017524
Status Public on Sep 17, 2013
Title Osseospeed8 DAY3
Sample type RNA
 
Source name implant adherent cells-alveolar bone-nanosurface implant-day3
Organism Homo sapiens
Characteristics gender: Female
Treatment protocol Fourty-four implants (cp titanium) were placed in the alveolar bone of 11 systemically healthy human subjects missing 2 or more teeth.Following anesthesia(Lidocaine 2% with epinephrine (1:100,000)), two separate crestal incisions approximately 6mm in length were made and full thickness mucoperiosteal flaps were raised. Each subject received two TIO and two OS implants. Two osteotomies were prepared per site to allow placement of one implant of each surface (1 TiO and 1 Os). This paired surgical design permitted the retrieval of the first 2 implants (1 of each surface) at the earlier time point without disturbing the healing of the other 2 implants. Drilling was completed using a 2.0 mm twist osteotomy drill under profuse irrigation with sterile saline. Single use osteotomy drills were used on each subject. All implants were placed by a self-tapping procedure and primary stability at the time of implant placement was insured. A submerged implant installation technique was used and the mucosal tissues were closed primarily with 4-0 chromic gut sutures
Growth protocol 11 Human subjects missing 2 or more teeth were included.Following anesthesia(Lidocaine 2% with epinephrine (1:100,000)), two separate crestal incisions approximately 6mm in length were made and full thickness mucoperiosteal flaps were raised. Each subject received two TIO and two OS implants. Two osteotomies were prepared per site to allow placement of one implant of each surface (1 TiO and 1 Os). This paired surgical design permitted the retrieval of the first 2 implants (1 of each surface) at the earlier time point without disturbing the healing of the other 2 implants. Drilling was completed using a 2.0 mm twist osteotomy drill under profuse irrigation with sterile saline. Single use osteotomy drills were used on each subject. All implants were placed by a self-tapping procedure and primary stability at the time of implant placement was insured. A submerged implant installation technique was used and the mucosal tissues were closed primarily with 4-0 chromic gut sutures.
Extracted molecule total RNA
Extraction protocol At 3 and 7 days following surgery, one surgical site was chosen at random, re-entered and the paired (One TIO and one OS) implants were removed by reverse threading. The implants were then immediately rinsed in cold PBS and then placed into 1000 ul of Tri-reagent (Invitrogen, Carlsbad, CA). Cell lysates were snap frozen, and stored at -80°C until further use. Total RNA was isolated from the lysates using the standard Tri-reagent protocol and collected by ethanol precipitation. This was followed by purification using RNeasy MinElute Clean up kit (Qiagen, Valencia, CA, USA). RNA was assessed for quality and quantity using a bioanalyzer (Agilent, Santa Clara, CA, USA) and nanodrop ND-1000 spectrophotometer (Nanodrop, Wilmington, DE) respectively.
Label Biotin
Label protocol Samples were processed and hybridized to the Affymetrix Human gene 1.1 ST Array at the UNC core facility following the manufacturer’s recommended protocols and reagents (Affymetrix, San Clara,CA). Labeling used Nugen Encore Biotin Module
 
Hybridization protocol The Encore Biotin Module V2-NuGen/Affymetrix Human gene 1.1 ST Array
Scan protocol Affymetrix GeneChip Scanner 3000 7G Plus with Autoloader
Data processing The data was analyzed using GeneSpring software v.12.0
 
Submission date Oct 10, 2012
Last update date Sep 17, 2013
Contact name Lyndon Cooper
Organization name UNC School of Dentistry
Department Prosthodontics
Lab Bone Biology and Implant Therapy Laboratory
Street address 330 Brauer Hall, CB#7450
City Chapel Hill
State/province NC
ZIP/Postal code 27599
Country USA
 
Platform ID GPL11532
Series (1)
GSE41446 Early molecular assessment of osseointegration in humans

Data table header descriptions
ID_REF
VALUE Summarization algorithm (RMA)

Data table
ID_REF VALUE
7896736 7.5926714
7896738 4.681601
7896740 5.774444
7896742 6.5735555
7896744 6.055366
7896746 9.901388
7896748 10.534595
7896750 6.0723505
7896752 10.644629
7896754 5.1653185
7896756 4.802269
7896759 5.410062
7896761 5.0547976
7896779 4.8587394
7896798 5.2952113
7896817 6.189608
7896822 5.0226836
7896859 4.680872
7896861 4.3500333
7896863 4.682562

Total number of rows: 28869

Table truncated, full table size 492 Kbytes.




Supplementary file Size Download File type/resource
GSM1017524_H8D3_OS.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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