RE: [Histonet] Aperio slide scanner
We load and scan the same way Brett does, it works quite well and we rarely have to rescan anything. Liz Elizabeth A. Chlipala, BS, HTL(ASCP)QIHC Premier Laboratory, LLC PO Box 18592 Boulder, CO 80308 (303) 682-3949 office (303) 682-9060 fax (303) 881-0763 cell l...@premierlab.com www.premierlab.com March 10, 2014 is Histotechnology Professionals Day Ship to Address: Premier Laboratory, LLC 1567 Skyway Drive, Unit E Longmont, CO 80504 -Original Message- From: Connolly, Brett M [mailto:brett_conno...@merck.com] Sent: Wednesday, June 11, 2014 11:39 AM To: Elizabeth Chlipala; Jan Shivers; histonet Subject: RE: [Histonet] Aperio slide scanner I will echo Liz's comments. I occasionally scan slides with an older Scanscope XT. It is worth the effort to clean and QC slides for artifacts as Liz points out as well as placing the section in the middle of the slide. Actual scanning is quite easy, each initial 'snapshot' is reviewed, AOI is resized to boundaries of the tissue and focus points are checked and verified to be overlaying tissue (not white space). I find that adding more focus points across the section greatly increased the quality of the image and rarely have I found any areas out of focus. Once the snapshot reviews are completed simply hit the 'One Touch' icon and batch scanning begins. I really like the ImageScope viewing program which lets one view the section and multiple magnifications, capture images, etc.. I have another system for IHC quantification, but other users are using the Aperio software to do that if that is part of your plan Brett Brett M. Connolly, Ph.D. Principle Scientist, Imaging Dept. Merck & Co., Inc. PO Box 4, WP-44K West Point, PA 19486 brett_conno...@merck.com T- 215-652-2501 F- 215-993-6803 -Original Message- From: histonet-boun...@lists.utsouthwestern.edu [mailto:histonet-boun...@lists.utsouthwestern.edu] On Behalf Of Elizabeth Chlipala Sent: Wednesday, June 11, 2014 12:46 PM To: Jan Shivers; histonet Subject: RE: [Histonet] Aperio slide scanner Jan They are not that difficult to operate but you do need person with some histology training scanning and QC'ing the slides and images. The need to understand initially if the section is good enough to scan, we QC our slides prior to placing them on the scanner, ones that have sectioning artifacts may not scan that well. Section placement on the slide is important, you can't have anything to close to the edge of a slide it will not scan well. The person responsible for scanning makes sure that the slide is clean and does not have any excess mounting media prior to placing on the scanner, excess mounting media and dirt may cause the scan to be out of focus, and then once the slides are scanned the scans need to be QC'd to make sure that they are good enough for the pathologist or whatever you are utilizing them for. Quality and consistency in histology preparation is key for good scanning results. These scanners scan in primarily one focal plane, meaning the pathologist loses the ability to fine focus as they would on a microscope. They are able to fine focus through poorer quality sections or uneven sections, scanned images do not have a fine focus unless you scan them at multiple focal planes or z-stack. I have seen some cytology images that have been scanned in a way that you have a fine focus slider but its not common for routine histology preps. We take some time upfront to adjust area of interest and check focal points prior to scanning of the slides. We find this works better than just going with the load and go method. We review the snapshots prior to scanning. I'm not sure what scanner you are getting or what version of the image capture software you will be using we have an Aperio ScanScope XT it has a 120 slide capacity. On occasion a particular slide may not scan well, that’s why we like to review the snapshots. For instance we were working on some amniotic membrane constructs these are a single cell layer thick so they are very thin and sometimes the computer does not pick the sample up as tissue because it so thin and can be lightly stained, so we need to place all of the focal points on the slides. You may not have samples like this but you might. Good Luck - feel free to contact me if you need any help once you get the scanner in house. Liz Elizabeth A. Chlipala, BS, HTL(ASCP)QIHC Premier Laboratory, LLC PO Box 18592 Boulder, CO 80308 (303) 682-3949 office (303) 682-9060 fax (303) 881-0763 cell l...@premierlab.com www.premierlab.com March 10, 2014 is Histotechnology Professionals Day Ship to Address: Premier Laboratory, LLC 1567 Skyway Drive, Unit E Longmont, CO 80504 -Original Message- From: histonet-boun...@lists.utsouthwestern.edu [mailto:histonet-boun...@lists.utsouthwestern.edu] On Behalf Of Jan Shivers Sent: Wednesday, June 11, 2014 10:25 AM To: hist
RE: [Histonet] Aperio slide scanner
I will echo Liz's comments. I occasionally scan slides with an older Scanscope XT. It is worth the effort to clean and QC slides for artifacts as Liz points out as well as placing the section in the middle of the slide. Actual scanning is quite easy, each initial 'snapshot' is reviewed, AOI is resized to boundaries of the tissue and focus points are checked and verified to be overlaying tissue (not white space). I find that adding more focus points across the section greatly increased the quality of the image and rarely have I found any areas out of focus. Once the snapshot reviews are completed simply hit the 'One Touch' icon and batch scanning begins. I really like the ImageScope viewing program which lets one view the section and multiple magnifications, capture images, etc.. I have another system for IHC quantification, but other users are using the Aperio software to do that if that is part of your plan Brett Brett M. Connolly, Ph.D. Principle Scientist, Imaging Dept. Merck & Co., Inc. PO Box 4, WP-44K West Point, PA 19486 brett_conno...@merck.com T- 215-652-2501 F- 215-993-6803 -Original Message- From: histonet-boun...@lists.utsouthwestern.edu [mailto:histonet-boun...@lists.utsouthwestern.edu] On Behalf Of Elizabeth Chlipala Sent: Wednesday, June 11, 2014 12:46 PM To: Jan Shivers; histonet Subject: RE: [Histonet] Aperio slide scanner Jan They are not that difficult to operate but you do need person with some histology training scanning and QC'ing the slides and images. The need to understand initially if the section is good enough to scan, we QC our slides prior to placing them on the scanner, ones that have sectioning artifacts may not scan that well. Section placement on the slide is important, you can't have anything to close to the edge of a slide it will not scan well. The person responsible for scanning makes sure that the slide is clean and does not have any excess mounting media prior to placing on the scanner, excess mounting media and dirt may cause the scan to be out of focus, and then once the slides are scanned the scans need to be QC'd to make sure that they are good enough for the pathologist or whatever you are utilizing them for. Quality and consistency in histology preparation is key for good scanning results. These scanners scan in primarily one focal plane, meaning the pathologist loses the ability to fine focus as they would on a microscope. They are able to fine focus through poorer quality sections or uneven sections, scanned images do not have a fine focus unless you scan them at multiple focal planes or z-stack. I have seen some cytology images that have been scanned in a way that you have a fine focus slider but its not common for routine histology preps. We take some time upfront to adjust area of interest and check focal points prior to scanning of the slides. We find this works better than just going with the load and go method. We review the snapshots prior to scanning. I'm not sure what scanner you are getting or what version of the image capture software you will be using we have an Aperio ScanScope XT it has a 120 slide capacity. On occasion a particular slide may not scan well, that’s why we like to review the snapshots. For instance we were working on some amniotic membrane constructs these are a single cell layer thick so they are very thin and sometimes the computer does not pick the sample up as tissue because it so thin and can be lightly stained, so we need to place all of the focal points on the slides. You may not have samples like this but you might. Good Luck - feel free to contact me if you need any help once you get the scanner in house. Liz Elizabeth A. Chlipala, BS, HTL(ASCP)QIHC Premier Laboratory, LLC PO Box 18592 Boulder, CO 80308 (303) 682-3949 office (303) 682-9060 fax (303) 881-0763 cell l...@premierlab.com www.premierlab.com March 10, 2014 is Histotechnology Professionals Day Ship to Address: Premier Laboratory, LLC 1567 Skyway Drive, Unit E Longmont, CO 80504 -Original Message- From: histonet-boun...@lists.utsouthwestern.edu [mailto:histonet-boun...@lists.utsouthwestern.edu] On Behalf Of Jan Shivers Sent: Wednesday, June 11, 2014 10:25 AM To: histonet Subject: [Histonet] Aperio slide scanner My department may purchase an Aperio slide scanner in the near future. My question is - how tech savvy does one need to be to operate the device? I have staffing concerns and the amount of training time involved. Thanks in advance. -- Jan Shivers IHC/Histology Section Head Pathology Teaching Program University of Minnesota shive...@umn.edu ___ Histonet mailing list Histonet@lists.utsouthwestern.edu http://lists.utsouthwestern.edu/mailman/listinfo/histonet Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One M
RE: [Histonet] Aperio slide scanner
Jan, We like ours a lot. And I agree with all that Liz mentioned. Bea Beatrice DeBrosse-Serra HT(ASCP)QIHC Isis Pharmaceuticals Antisense Drug Discovery 2855 Gazelle Ct. Carlsbad, CA 92010 760-603-2371 -Original Message- From: histonet-boun...@lists.utsouthwestern.edu [mailto:histonet-boun...@lists.utsouthwestern.edu] On Behalf Of Jan Shivers Sent: Wednesday, June 11, 2014 9:25 AM To: histonet Subject: [Histonet] Aperio slide scanner My department may purchase an Aperio slide scanner in the near future. My question is - how tech savvy does one need to be to operate the device? I have staffing concerns and the amount of training time involved. Thanks in advance. -- Jan Shivers IHC/Histology Section Head Pathology Teaching Program University of Minnesota shive...@umn.edu ___ Histonet mailing list Histonet@lists.utsouthwestern.edu http://lists.utsouthwestern.edu/mailman/listinfo/histonet ___ Histonet mailing list Histonet@lists.utsouthwestern.edu http://lists.utsouthwestern.edu/mailman/listinfo/histonet
RE: [Histonet] Aperio slide scanner
Jan They are not that difficult to operate but you do need person with some histology training scanning and QC'ing the slides and images. The need to understand initially if the section is good enough to scan, we QC our slides prior to placing them on the scanner, ones that have sectioning artifacts may not scan that well. Section placement on the slide is important, you can't have anything to close to the edge of a slide it will not scan well. The person responsible for scanning makes sure that the slide is clean and does not have any excess mounting media prior to placing on the scanner, excess mounting media and dirt may cause the scan to be out of focus, and then once the slides are scanned the scans need to be QC'd to make sure that they are good enough for the pathologist or whatever you are utilizing them for. Quality and consistency in histology preparation is key for good scanning results. These scanners scan in primarily one focal plane, meaning the pathologist loses the ability to fine focus as they would on a microscope. They are able to fine focus through poorer quality sections or uneven sections, scanned images do not have a fine focus unless you scan them at multiple focal planes or z-stack. I have seen some cytology images that have been scanned in a way that you have a fine focus slider but its not common for routine histology preps. We take some time upfront to adjust area of interest and check focal points prior to scanning of the slides. We find this works better than just going with the load and go method. We review the snapshots prior to scanning. I'm not sure what scanner you are getting or what version of the image capture software you will be using we have an Aperio ScanScope XT it has a 120 slide capacity. On occasion a particular slide may not scan well, that’s why we like to review the snapshots. For instance we were working on some amniotic membrane constructs these are a single cell layer thick so they are very thin and sometimes the computer does not pick the sample up as tissue because it so thin and can be lightly stained, so we need to place all of the focal points on the slides. You may not have samples like this but you might. Good Luck - feel free to contact me if you need any help once you get the scanner in house. Liz Elizabeth A. Chlipala, BS, HTL(ASCP)QIHC Premier Laboratory, LLC PO Box 18592 Boulder, CO 80308 (303) 682-3949 office (303) 682-9060 fax (303) 881-0763 cell l...@premierlab.com www.premierlab.com March 10, 2014 is Histotechnology Professionals Day Ship to Address: Premier Laboratory, LLC 1567 Skyway Drive, Unit E Longmont, CO 80504 -Original Message- From: histonet-boun...@lists.utsouthwestern.edu [mailto:histonet-boun...@lists.utsouthwestern.edu] On Behalf Of Jan Shivers Sent: Wednesday, June 11, 2014 10:25 AM To: histonet Subject: [Histonet] Aperio slide scanner My department may purchase an Aperio slide scanner in the near future. My question is - how tech savvy does one need to be to operate the device? I have staffing concerns and the amount of training time involved. Thanks in advance. -- Jan Shivers IHC/Histology Section Head Pathology Teaching Program University of Minnesota shive...@umn.edu ___ Histonet mailing list Histonet@lists.utsouthwestern.edu http://lists.utsouthwestern.edu/mailman/listinfo/histonet ___ Histonet mailing list Histonet@lists.utsouthwestern.edu http://lists.utsouthwestern.edu/mailman/listinfo/histonet
[Histonet] Aperio slide scanner
My department may purchase an Aperio slide scanner in the near future. My question is - how tech savvy does one need to be to operate the device? I have staffing concerns and the amount of training time involved. Thanks in advance. -- Jan Shivers IHC/Histology Section Head Pathology Teaching Program University of Minnesota shive...@umn.edu ___ Histonet mailing list Histonet@lists.utsouthwestern.edu http://lists.utsouthwestern.edu/mailman/listinfo/histonet
