SSBTR International Webinar Lecture Series Day: 2021 March 14 (Sunday) IST 13:45 Hour

 Society for Systems Biology & Translational Research (SSBTR) is a registered (and also both 12A & 80G certified) not-for-profit scientific society organizes an International Webinar Series Lectures on Translational Systems Biology.

All are cordially invited. For date, time and link and other details as below:

GOOGLE MEET Link: url (https://meet.google.com/qjb-utgp-ymk)

Day: 2021-March-14 (Sunday)    Time: IST 14:00 Hour

# Speaker: Dr. Milana Frenkel-Morgenstern
Title: Diagnosis of Glioma Tumors Using Circulating Cell-Free DNA
Abstract: Gliomas are the most frequent brain tumors, making up about 30% of all brain and central nervous system tumors, and 80% of all malignant brain tumors. Diagnosis of different glioma tumor types and their tumor grade is an essential step to suggest a right treatment for the glioma patients. Existing standard diagnostic technique for glioma tumor includes tissue biopsy, which is a highly invasive and hence a risky technique for the patient’s survival. ‘Liquid biopsy’ is a new and recently developed non-invasive cancer diagnostic technique. This technique includes collection of blood or urine samples and diagnosis of cancer based on analyzing molecular bits or cancer cells that are released from tumor tissue into the blood or urine system. Circulating cell-free DNA (cfDNA) fragments is one those molecular bits that are released into the bloodstream after rapid apoptosis or necrosis of the tumor cells in the cancer patients. Our goal is to do comprehensive study between distinct types of glioma cancer tumors and cfDNA of the respective patients, to elucidate the scope of cfDNA in liquid biopsy technique for glioma diagnosis. We have successfully detected glioma specific mutations such as IDH1, IDH2, PDGFRA, NOTCH1, PIK3R1 and TP53, from cfDNA isolated from the plasma of glioma patients and could relate these mutations to the different tumor grades of glioma. Moreover, we have identified unique gene-gene fusions that provide a personalized drug response to glioma treatment. Our study may help in developing liquid biopsy technique for glioma tumor diagnosis and in its prognosis for monitoring the glioma treatment by non-invasive approach, and will eventually help physicians to decide on the right treatment while bypassing the existing ''wait-and-see' approach of treatment monitoring.
Biosketch: Dr. Milana Frenkel-Morgenstern, Senior Lecturer and Head of Cancer Genomics and Bio-computing of Complex Diseases, Azrieli Faculty of Medicine, Bar-Ilan University. She has completed her Ph.D in the Weizmann Institute of Science, Israel in 2006. She made her first postdoc in the lab of Prof. Uri Alon in Systems Biology in the Weizmann Institute of Science, Israel, and the second postdoc in the lab of Prof. Alfonso Valencia in the Spanish National Cancer Research Centre (CNIO), Spain. She has published more than 50 papers in reputed journals and serving as an editorial board member of repute. She is a founder of special scientific Art in Science competition at the international Bioinformatics conferences since 2008, a chair of the ISCB affiliated Israeli Bioinformatics group. Her group has developed unique protocols for the cell free DNA isolation and its analysis using unique and patented techniques, the group in working in evolution of protein interaction networks.  

# Speaker: Dr. Durjoy Majumder 
Title: Development of Algorithm for Automated Diagnosis of Leukemia : A Systems Biology Application for Preventive Oncology
Abstract: Bone marrow biopsy has become an integral part of leukemia diagnosis and its treatment. Several advancements are being made towards the analysis of digital images of biopsy samples. Recently FDA approved the procedures of digital health. In tune with that digital image analysis has become propelled. With the advent of high-throughput technologies, scientific community becomes interested to look into the red blood cells (RBCs) for early detection of cancer, including leukemia. The reasons are due to their abundance in peripheral blood and hence, easily accessible compared to bone marrow biopsy procedure. High magnification and high-resolution electron microscopy based ultra-structural analysis of RBCs already proved the utility of the hypothesis about a decade ago. However, in clinical set-up, electron microscopy based procedures are the major bottleneck in implementation of early detection of leukemia. Algorithm based computer vision may be suitable to overcome this limitation. To fill the existing gap a user-friendly MatLab coding is developed for automated analysis of RBC images. RBC images from both normal and leukemia were analyzed with the developed code. Each RBC cells were analyzed individually for each samples of normal and leukemia. So in the output cellular characteristics namely, radius, perimeter, area, convexity, solidity were represented in a quantitative manner. Comparison of mean values between normal and leukemia groups for corresponding variables showed statistical significance (p<0.05). Thus, the developed code successfully distinguishes between RBC cells of leukemia and normal. We hope that this RBC based developed code would be useful in identifying early stage of leukemia in an individual patient; however, for this ~100 RBC cells are needed to be analyzed. Thus it is expected that the developed code may play a role in preventive oncology.
Biosketch: Dr. Durjoy Majumder, Assistant Professor of Physiology, West Bengal State University, received his Ph.D. in 2006 from Biophysics & Structural Genomics Division of Saha institute of Nuclear Physics. He gained a multi-/interdisciplinary research experience by working in science, medical and engineering faculties. He worked in different tertiary grade medical institutions like School of Tropical Medicine, Kolkata and Sanjay Gandhi Postgraduate Institute of Medical Sciences, Lucknow. Before joining to present position he hold a faculty position in engineering faculty of Institute Indian Institute Engineering Science & Technology, Shibpur. His research interests include cancer, cancer immunology, cancer systems biology, systems pharmacology, pre- and post-clinical phases of cancer management. He has more than 50 research publications in different peer-reviewed journals, conferences, book chapters and book. He holds positions of editorial board members in different international journals. In the area of systems biology, his research group has developed a new philosophical outlook called “Middle-out Rationalistic Analysis” for cancer systems.

Event Photos: 

 

    

COMPLETED
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Durjoy Majumder, Ph.D.

Movement (conference) - Oxford University

Dear colleagues,
I am honored to  invite you to attend the world conference on Movement sponsored, in part, by the Harvard University School of Medicine’s Spaulding Rehabilitation Hospital, the M.I.N.D. Institute at M.I.T., the Hebrew University of Jerusalem, the Wingate Institute for Sports and Exercise Science, the National Institute for Brain and Rehabilitation Sciences, Nazareth, Israel, the Institute for Neurology and Neurosurgery, Havana, the University of the Medical Sciences Facultad ‘Manuel Fajardo’ Havana, the School of Public Health of the University of Havana, and Bielefeld University in Germany.
The purpose of the conference is to share knowledge of all those whose interests lie in the nature of human movement. The conference will address issues related to gait, motion, kinesiology, disorders of movement, movement rehabilitation, motion and balance, movement and cognition, human factors and ergonomics, as well as optimized movement in elite athletes, developmental issues of movement and coordination. Workshops on physiotherapy of movement impairment will also be provided.
You are hereby invited to join us  and participate in this unique conference.
The abstracts of the conference as well as selected principal papers will be proceedings and will be published in the journal Functional Neurology, Rehabilitation, and Ergonomics published by Nova Scientific publishers.
We welcome your participation in this event that addresses the relationship between movement and cognition and I personally welcome your enquiries and suggestions. In the meantime, please check out our website at: www.movementis.net  (Our mail: office@movementis.com)
Should you have any questions about the nature and form of the abstracts or pertaining to the larger papers, please connect with me at: g.leisman@alumni.manchester.ac.uk
I hope to meet each of you at Oxford University in July 2017
Wish very best wishes,
Gerry Leisman
Chair Scientific Committee, MOVEMENT 2017
Director, The National Institute for Brain and Rehabilitation Sciences, Nazareth, Israel
Professor, Human Factors and Rehabilitation Sciences
O.R.T.-Braude College of Engineering, Karmiel, Israel
Profesor de Neurología restaurativa
Universidad de Ciencias Médicas de la Habana
Facultad Manuel Fajardo, Havana, Cuba

Natural Language Processing Use in Radiology: A Systematic Review

Following document is important with respect to Electronic Health Record -

"Natural Language Processing Use in Radiology: A Systematic Review" by Dorothy A. Sippo, MD, MPH, CIIP, Johns Hopkins University School of Medicine; Daniel Rubin, MD, MS; Paul G. Nagy, PhD, FSIIM; Brandyn Lau, MPH presented in the Annual Meeting of Society for Imaging Informatics in Medicine, SiiM2015

Hypothesis: The performance of natural language processing used in radiology has improved over time. The types of applications of this technology in radiology have expanded over time.

Introduction: The Health Information Technology for Economic and Clinical Health (HITECH) Act of 2009 has spurred greater adoption of electronic health records (EHRs), with their use nearly doubling from 2010-2011 (1). With more clinical data available in an electronic format, the goal is to be able to leverage this data to assess the quality of care and guide future decision making. A significant proportion of EHR data is stored in a narrative, unstructured format. Natural language processing (NLP) employs a computer to extract meaningful information from human language. In the setting of the EHR, it is typically used to extract information from unstructured report text. A 2008 review of research on the extraction of information from text documents in EHRs revealed that performance of these systems has improved since a prior systematic review in 1995 (2).
Radiology is a medical subspecialty with a rich collection of text documents reporting the results of imaging examinations. Frequently, these documents have been stored in an electronic format over significant periods of time. They represent an archive that is ripe for information extraction to identify imaging findings and disease diagnoses. There are numerous descriptions in the literature to NLP being applied within radiology (3). A systematic review of the literature to investigate the use of NLP in radiology would be helpful to summarize the progress in the field and to identify gaps. The goal of this work is to evaluate the performance of NLP over time in radiology. We will identify the types of information being extracted from radiology reports and the clinical applications of this informatics tool. We will also address the computer science methods being used for NLP in radiology. From our review, we will identify gaps in functionality and opportunities for future work.

Methods: We will use a systematic approach to searching the literature to minimize the risk of bias in selecting articles for inclusion in this review. Searching the literature will involve identifying reference sources, formulating a search strategy for each source, and executing and documenting each search. For our searches of electronic databases, we will identify relevant medical subject heading terms. 

Sources Our comprehensive search will include electronic searching of peer-reviewed literature databases and grey-literature databases as well as hand-searching. We will run searches of the MEDLINE®, EMBASE®, Cochrane Library, Scopus, Cumulative Index to Nursing and Allied Health Literature (CINAHL), Web of Science, INSPEC, and Compendex databases through September 15, 2014. We will design search strategies specific to each database to enable the team to focus the available resources on articles that are most likely to be relevant to the key questions about the performance and application of NLP over time within radiology. We will develop a core strategy for MEDLINE®, accessed via PubMed, on the basis of an analysis of the relevant medical subject heading terms and text words of key articles identified a priori. The PubMed strategy will form the basis for the strategies developed for the other electronic databases.

Management of Literature Search With the assistance of the Johns Hopkins University Welch Medical Library, all references will be downloaded into ProCite® version 5.0.3 (ISI ResearchSoft, Carlsbad, CA) and de-duplicated prior to initiating the review. We will use this database to store full articles in portable document format (PDF) and to track the search results at the title review, abstract review, article inclusion/exclusion levels.
Title Review Two team members will independently reviewed all titles. For a title to be eliminated at this level, both reviewers must indicate that it is ineligible. If the first reviewer marks a title as eligible, it will be promoted to the next level, or if the two reviewers do not agree on the eligibility of an article, it will automatically promoted to the next level.
Abstract Review We will exclude an abstract at this level if the abstract does not apply to one of the key questions or for any of the following reasons: does not address NLP used in radiology, has no original data (e.g., letter to the editor, comment, systematic review), or is not in English. Abstracts will be promoted to the article review level if two reviewers agreed that the abstract could be applicable. Differences of opinion will be resolved by discussion between the two reviewers.
Article Review Full articles that were selected for review during the abstract review phase will undergo independent review by two members of the study team to determine whether they should be included in the full data abstraction. If both reviewers determine the articles have applicable information, the articles will be included in the data abstraction.
Data Abstraction We will sequentially review each article to abstract data from the final list of articles. For all articles, reviewers will extract information on general study characteristics, including: study design, location, clinical topic of interest, inclusion and exclusion criteria, description of the population under study, and description of the NLP applications. In this process, the primary reviewer will complete all relevant data abstraction forms. A second reviewer will check the first reviewer’s data abstraction forms for completeness and accuracy. We will form reviewer pairs to include personnel with both clinical and methodological expertise. We will resolve differences of opinion through consensus adjudication between the reviewers.

Results: We will summarize the different types of NLP approaches used on radiology reports and their reported performance. We will describe how NLP is being applied to radiology and assess if applications have expanded over time. We will present the types of computer science methods used for NLP in radiology and, where possible, categorize these methodologies. We will also identify gaps in functionality and applications of NLP as it relates to modern challenges of quality assurance, business intelligence, decision support, and scientific discovery.

Discussion: We will discuss types of applications of NLP in radiology and how this has the potential to enable knowledge discovery to inform future healthcare decision making. We will highlight NLP applications with superior performance and factors that may have contributed to their success. We will discuss how an understanding of NLP methods can inform future development of NLP applications within radiology.

Conclusion: A systematic review of the literature of the use of NLP in radiology demonstrates how its performance and scope of applications have evolved over time and suggests new opportunities for research.

References:

1. DesRoches CM, Charles D, Furukawa MF, Joshi MS, Kralovec P, Mostashari F, Worzala C, Jha AK. Adoption Of Electronic Health Records Grows Rapidly, But Fewer Than Half Of US Hospitals Had At Least A Basic System In 2012. Health Aff (Millwood). 2013 Aug;32(8):1478-85.
2. Meystre SM, Savova GK, Kipper-Schuler KC, Hurdle JF. Extracting information from textual documents in the electronic health record: a review of recent research. Yearb Med Inform. 2008:128-44.
3. Friedman C. A broad-coverage natural language processing system. Proc AMIA Symp. 2000:270-4.

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Durjoy Majumder, Ph.D
Secretary, SSBTR

Movement 2017 -invitation and call for abstracts

Dear colleagues,
I am honored to  invite you to attend the world conference on Movement sponsored, in part, by the Harvard University School of Medicine’s Spaulding Rehabilitation Hospital, the M.I.N.D. Institute at M.I.T., the Hebrew University of Jerusalem, the Wingate Institute for Sports and Exercise Science, the National Institute for Brain and Rehabilitation Sciences, Nazareth, Israel, the Institute for Neurology and Neurosurgery, Havana, the University of the Medical Sciences Facultad ‘Manuel Fajardo’ Havana, the School of Public Health of the University of Havana, and Bielefeld University in Germany.
The purpose of the conference is to share knowledge of all those whose interests lie in the nature of human movement. The conference will address issues related to gait, motion, kinesiology, disorders of movement, movement rehabilitation, motion and balance, movement and cognition, human factors and ergonomics, as well as optimized movement in elite athletes, developmental issues of movement and coordination. Workshops on physiotherapy of movement impairment will also be provided.
The abstracts of the conference as well as selected principal papers will be proceedings and will be published in the journal Functional Neurology, Rehabilitation, and Ergonomics published by Nova Scientific publishers.
We welcome your participation in this event that addresses the relationship between movement and cognition and I personally welcome your enquiries and suggestions. In the meantime, please check out our website at: www.movementis.net  (Our mail: office@movementis.com)
Should you have any questions about the nature and form of the abstracts or pertaining to the larger papers, please connect with me at: g.leisman@alumni.manchester.ac.uk
I hope to meet each of you at Oxford University in July 2017
Wish very best wishes,
Gerry Leisman
Chair Scientific Committee, MOVEMENT 2017
Director, The National Institute for Brain and Rehabilitation Sciences, Nazareth, Israel
Professor, Human Factors and Rehabilitation Sciences
O.R.T.-Braude College of Engineering, Karmiel, Israel
Profesor de Neurología restaurativa
Universidad de Ciencias Médicas de la Habana
Facultad Manuel Fajardo, Havana, Cuba