keyword
MENU ▼
Read by QxMD icon Read
search

Biospecimen technology

keyword
https://www.readbyqxmd.com/read/29755427/16s-rrna-gene-sequencing-for-deciphering-the-colorectal-cancer-gut-microbiome-current-protocols-and-workflows
#1
REVIEW
Muhammad-Afiq Osman, Hui-Min Neoh, Nurul-Syakima Ab Mutalib, Siok-Fong Chin, Rahman Jamal
The human gut holds the densest microbiome ecosystem essential in maintaining a healthy host physiology, whereby disruption of this ecosystem has been linked to the development of colorectal cancer (CRC). The advent of next-generation sequencing technologies such as the 16S rRNA gene sequencing has enabled characterization of the CRC gut microbiome architecture in an affordable and culture-free approach. Nevertheless, the lack of standardization in handling and storage of biospecimens, nucleic acid extraction, 16S rRNA gene primer selection, length, and depth of sequencing and bioinformatics analyses have contributed to discrepancies found in various published studies of this field...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29723042/extracting-dna-from-ffpe-tissue-biospecimens-using-user-friendly-automated-technology-is-there-an-impact-on-yield-or-quality
#2
William Mathieson, Nafia Guljar, Ignacio Sanchez, Manveer Sroya, Gerry A Thomas
DNA extracted from formalin-fixed, paraffin-embedded (FFPE) tissue blocks is amenable to analytical techniques, including sequencing. DNA extraction protocols are typically long and complex, often involving an overnight proteinase K digest. Automated platforms that shorten and simplify the process are therefore an attractive proposition for users wanting a faster turn-around or to process large numbers of biospecimens. It is, however, unclear whether automated extraction systems return poorer DNA yields or quality than manual extractions performed by experienced technicians...
May 3, 2018: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/29601333/circulating-tumor-cells-strategies-for-capture-analyses-and-propagation
#3
Ashutosh Agarwal, Marija Balic, Dorraya El-Ashry, Richard J Cote
Circulating tumor cells (CTCs) play a central role in tumor dissemination and metastases, which are ultimately responsible for most cancer deaths. Technologies that allow for identification and enumeration of rare CTC from cancer patients' blood have already established CTC as an important clinical biomarker for cancer diagnosis and prognosis. Indeed, current efforts to robustly characterize CTC as well as the associated cells of the tumor microenvironment such as circulating cancer associated fibroblasts (cCAF), are poised to unmask key insights into the metastatic process...
March 2018: Cancer Journal
https://www.readbyqxmd.com/read/29496157/a-review-of-brain-biorepository-management-and-operations
#4
H Ronald Zielke, Deborah C Mash
Brain biospecimen banking requires centralized resources, national networks for referral of donors, trained personnel to interact with grieving families, and scientific staff to process the biospecimens. Process development of quality control standards is needed to meet the specific requirements of emerging genomic and proteomic technologies. Attention has to be paid to agonal factors and postmortem interval, tissue processing, neuropathology review, and long-term storage. Samples of both diseased and unaffected normal tissues are required with age- and gender-matched control tissues...
2018: Handbook of Clinical Neurology
https://www.readbyqxmd.com/read/29494219/molecular-diagnostics-in-pathology-time-for-a-next-generation-pathologist
#5
Matteo Fassan
CONTEXT: - Comprehensive molecular investigations of mainstream carcinogenic processes have led to the use of effective molecular targeted agents in most cases of solid tumors in clinical settings. OBJECTIVE: - To update readers regarding the evolving role of the pathologist in the therapeutic decision-making process and the introduction of next-generation technologies into pathology practice. DATA SOURCES: - Current literature on the topic, primarily sourced from the PubMed (National Center for Biotechnology Information, Bethesda, Maryland) database, were reviewed...
March 2018: Archives of Pathology & Laboratory Medicine
https://www.readbyqxmd.com/read/29471114/reference-size-matching-whole-genome-amplification-and-fluorescent-labeling-as-a-method-for-chromosomal-microarray-analysis-of-clinically-actionable-copy-number-alterations-in-formalin-fixed-paraffin-embedded-tumor-tissue
#6
Shelly R Gunn, Shailin Govender, Cynthe L Sims, Aditi Khurana, Samuel Koo, Jayne Scoggin, Mathew W Moore, Philip D Cotter
Cancer genome copy number alterations (CNAs) assist clinicians in selecting targeted therapeutics. Solid tumor CNAs are most commonly evaluated in formalin-fixed, paraffin-embedded (FFPE) tissue by fluorescence in situ hybridization. Although fluorescence in situ hybridization is a sensitive and specific assay for interrogating preselected genomic regions, it provides no information about coexisting clinically significant copy number changes. Chromosomal microarray analysis is an alternative DNA-based method for interrogating genome-wide CNAs in solid tumors...
May 2018: Journal of Molecular Diagnostics: JMD
https://www.readbyqxmd.com/read/29446451/practical-data-collection-and-extraction-for-big-data-applications-in-radiotherapy
#7
Todd R McNutt, Michael Bowers, Sierra Cheng, Peijin Han, Xuan Hui, Joseph Moore, Scott Robertson, Charles Mayo, Ranh Voong, Harry Quon
The capture of high quality treatment and outcomes data is necessary in order to learn from our clinical experiences with big data analytics. In radiotherapy, there are several practical challenges to overcome. Practical aspects of data collection are discussed pointing to a need for a culture change in clinical practice to one that captures structured patient related data in routine care in a prospective manner. Radiation dosimetry and the contoured anatomy must also be captured routinely to represent the best estimate of delivered radiation...
February 15, 2018: Medical Physics
https://www.readbyqxmd.com/read/29026104/cetsa-quantitatively-verifies-in-vivo-target-engagement-of-novel-ripk1-inhibitors-in-various-biospecimens
#8
Tsuyoshi Ishii, Takuro Okai, Misa Iwatani-Yoshihara, Manabu Mochizuki, Satoko Unno, Masako Kuno, Masato Yoshikawa, Sachio Shibata, Masanori Nakakariya, Takatoshi Yogo, Tomohiro Kawamoto
The proof of target engagement (TE) is a key element for evaluating potential investment in drug development. The cellular thermal shift assay (CETSA) is expected to facilitate direct measurement of intracellular TE at all stages of drug development. However, there have been no reports of applying this technology to comprehensive animal and clinical studies. This report demonstrates that CETSA can not only quantitatively evaluate the drug-TE in mouse peripheral blood, but also confirm TE in animal tissues exemplified by using the receptor interacting protein 1 kinase (RIPK1) lead compound we have developed...
October 12, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28747168/the-biobank-for-the-molecular-classification-of-kidney-disease-research-translation-and-precision-medicine-in-nephrology
#9
Daniel A Muruve, Michelle C Mann, Kevin Chapman, Josee F Wong, Pietro Ravani, Stacey A Page, Hallgrimur Benediktsson
BACKGROUND: Advances in technology and the ability to interrogate disease pathogenesis using systems biology approaches are exploding. As exemplified by the substantial progress in the personalized diagnosis and treatment of cancer, the application of systems biology to enable precision medicine in other disciplines such as Nephrology is well underway. Infrastructure that permits the integration of clinical data, patient biospecimens and advanced technologies is required for institutions to contribute to, and benefit from research in molecular disease classification and to devise specific and patient-oriented treatments...
July 26, 2017: BMC Nephrology
https://www.readbyqxmd.com/read/28683736/security-controls-in-an-integrated-biobank-to-protect-privacy-in-data-sharing-rationale-and-study-design
#10
Takako Takai-Igarashi, Kengo Kinoshita, Masao Nagasaki, Soichi Ogishima, Naoki Nakamura, Sachiko Nagase, Satoshi Nagaie, Tomo Saito, Fuji Nagami, Naoko Minegishi, Yoichi Suzuki, Kichiya Suzuki, Hiroaki Hashizume, Shinichi Kuriyama, Atsushi Hozawa, Nobuo Yaegashi, Shigeo Kure, Gen Tamiya, Yoshio Kawaguchi, Hiroshi Tanaka, Masayuki Yamamoto
BACKGROUND: With the goal of realizing genome-based personalized healthcare, we have developed a biobank that integrates personal health, genome, and omics data along with biospecimens donated by volunteers of 150,000. Such a large-scale of data integration involves obvious risks of privacy violation. The research use of personal genome and health information is a topic of global discussion with regard to the protection of privacy while promoting scientific advancement. The present paper reports on our plans, current attempts, and accomplishments in addressing security problems involved in data sharing to ensure donor privacy while promoting scientific advancement...
July 6, 2017: BMC Medical Informatics and Decision Making
https://www.readbyqxmd.com/read/28555937/market-driven-production-of-biospecimens-and-the-role-of-nhs-hospital-led-biobanks
#11
Stephen Timmons, Paraskevas Vezyridis
Biobanks are vital for biospecimen production in research, despite the regulatory, recruitment and commercial difficulties they face. We conducted interviews with clinicians, researchers, volunteers who recruit biobank participants, regulators and NHS managers about the integration of a biobank into an NHS hospital. We show that medical waste collected for biomedical research acquires its socio-ethical and economic value from the level of integration (both technologically and organisationally) of the biobank into the NHS hospital...
September 2017: Sociology of Health & Illness
https://www.readbyqxmd.com/read/28464877/assessment-of-knowledge-about-biobanking-among-healthcare-students-and-their-willingness-to-donate-biospecimens
#12
Leena Merdad, Lama Aldakhil, Rawan Gadi, Mourad Assidi, Salina Y Saddick, Adel Abuzenadah, Jim Vaught, Abdelbaset Buhmeida, Mohammed H Al-Qahtani
BACKGROUND: Biobanks and biospecimen collections are becoming a primary means of delivering personalized diagnostics and tailoring individualized therapeutics. This shift towards precision medicine (PM) requires interactions among a variety of stakeholders, including the public, patients, healthcare providers, government, and donors. Very few studies have investigated the role of healthcare students in biobanking and biospecimen donations. The main aims of this study were (1) to evaluate the knowledge of senior healthcare students about biobanks and (2) to assess the students' willingness to donate biospecimens and the factors influencing their attitudes...
May 2, 2017: BMC Medical Ethics
https://www.readbyqxmd.com/read/28378896/a-comprehensive-assessment-of-immunophenotyping-performed-in-cryopreserved-peripheral-whole-blood
#13
Chris P Verschoor, Vikas Kohli, Cynthia Balion
BACKGROUND: Monitoring the frequency and phenotype of white blood cell subsets using flow cytometry (immunophenotyping) has proven to be an incredibly powerful tool in the assessment of health. Although improved technologies have aided in the practical implementation of immunophenotyping in clinical and epidemiological studies, the transportation of blood from the site of collection to a central laboratory for analysis within a reasonable timeframe may not be feasible. Hence, the purpose of the following study was to investigate the validity of cryopreserved whole blood as a simple to prepare and cost-effective biospecimen for multi-colour immunophenotyping in a large epidemiological study-namely, The Canadian Longitudinal Study on Aging (CLSA)...
April 5, 2017: Cytometry. Part B, Clinical Cytometry
https://www.readbyqxmd.com/read/28338345/challenges-and-driving-forces-for-business-plans-in-biobanking
#14
Tanja Macheiner, Berthold Huppertz, Michaela Bayer, Karine Sargsyan
BACKGROUND: Due to increased utilization of biospecimens for research and emergence of new technologies, the availability and quality of biospecimens and their collection are coming more and more into focus. However, the long-term economic situation of biobanks is still mostly unclear. Also, the common sustainable utilization of various international biobanks is challenging due to local differences in sample processing, law and ethics. AIM: This article discusses possible strategies to achieve a sustainable utilization of biospecimens as part of the business plan of biobanks...
April 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28300421/the-state-of-cloud-based-biospecimen-and-biobank-data-management-tools
#15
Shonali Paul, Aditi Gade, Sumani Mallipeddi
Biobanks are critical for collecting and managing high-quality biospecimens from donors with appropriate clinical annotation. The high-quality human biospecimens and associated data are required to better understand disease processes. Therefore, biobanks have become an important and essential resource for healthcare research and drug discovery. However, collecting and managing huge volumes of data (biospecimens and associated clinical data) necessitate that biobanks use appropriate data management solutions that can keep pace with the ever-changing requirements of research...
April 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28186851/efficiently-maintaining-a-national-resource-of-historical-and-contemporary-biological-collections-the-nhlbi-biorepository-model
#16
Katheryn E Shea, Elizabeth L Wagner, Leah Marchesani, Kevin Meagher, Carol Giffen
INTRODUCTION: Reducing costs by improving storage efficiency has been a focus of the National Heart, Lung, and Blood Institute (NHLBI) Biologic Specimen Repository (Biorepository) and Biologic Specimen and Data Repositories Information Coordinating Center (BioLINCC) programs for several years. METHODS: Study specimen profiles were compiled using the BioLINCC collection catalog. Cost assessments and calculations on the return on investments to consolidate or reduce a collection, were developed and implemented...
February 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28137566/mass-spectrometry-based-analysis-for-the-discovery-and-validation-of-potential-colorectal-cancer-stool-biomarkers
#17
C S Ang, M S Baker, E C Nice
Colorectal cancer (CRC) is the third leading cause of cancer mortality for both men and women, and the second leading cause of cancer death for men and women combined. If detected early, before metastasis has occurred, survival following surgical resection of the tumor is >90%. Early detection is therefore critical for effective disease surveillance. Unfortunately, current biomarker assays lack the necessary sensitivity and specificity for reliable early disease detection. Development of new robust, non- or minimally invasive specific and sensitive biomarkers or panels with improved compliance and performance is therefore urgently required...
2017: Methods in Enzymology
https://www.readbyqxmd.com/read/28103080/organization-of-bbmri-pl-the-polish-biobanking-network
#18
Małgorzata Witoń, Dominik Strapagiel, Joanna Gleńska-Olender, Anna Chróścicka, Katarzyna Ferdyn, Jarosław Skokowski, Leszek Kalinowski, Jakub Pawlikowski, Błażej Marciniak, Markus Pasterk, Agnieszka Matera-Witkiewicz, Łukasz Kozera
In Poland storage of human biological samples takes place at most universities and scientific institutions conducting research projects in the field of biomedicine. The First International Biobanking Conference organized by the Ministry of Science and Higher Education in 2014 shed a light on the situation of Polish biobanking infrastructures. The country has around 40 large biorepositories, which store unique biological material such as whole brains, muscle fibers from patients with rare diseases, as well as thousands of samples from patients with lifestyle diseases...
June 2017: Biopreservation and Biobanking
https://www.readbyqxmd.com/read/28067089/metabolomic-applications-in-radiation-biodosimetry-exploring-radiation-effects-through-small-molecules
#19
REVIEW
Evan L Pannkuk, Albert J Fornace, Evagelia C Laiakis
PURPOSE: Exposure of the general population to ionizing radiation has increased in the past decades, primarily due to long distance travel and medical procedures. On the other hand, accidental exposures, nuclear accidents, and elevated threats of terrorism with the potential detonation of a radiological dispersal device or improvised nuclear device in a major city, all have led to increased needs for rapid biodosimetry and assessment of exposure to different radiation qualities and scenarios...
October 2017: International Journal of Radiation Biology
https://www.readbyqxmd.com/read/28060806/high-throughput-sequencing-of-extracellular-rna-from-human-plasma
#20
Kirsty M Danielson, Renee Rubio, Fieda Abderazzaq, Saumya Das, Yaoyu E Wang
The presence and relative stability of extracellular RNAs (exRNAs) in biofluids has led to an emerging recognition of their promise as 'liquid biopsies' for diseases. Most prior studies on discovery of exRNAs as disease-specific biomarkers have focused on microRNAs (miRNAs) using technologies such as qRT-PCR and microarrays. The recent application of next-generation sequencing to discovery of exRNA biomarkers has revealed the presence of potential novel miRNAs as well as other RNA species such as tRNAs, snoRNAs, piRNAs and lncRNAs in biofluids...
2017: PloS One
keyword
keyword
110728
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"