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Cancer Genomics Research Associate . Spearhead scripted analyses of the FoundationCore database as primary python and R developer on over 36 inquires for our chief biopharmaceutical partner . Lead bioinformatics research on oncogenic synthetic lethality , rapid database wide patient to patient similarity scoring , harnessing off target sequencing reads for expanding biomarker detection , and enabling parent of origin calling for deleted chromosomal segments . Oversee documenting of FoundationCore , our repository of over 200 specimen variant level data fields for 400,000 patients ; tasked with defining , scoping , and programmatically validating all information used for investigational research and data product development . . Computational Biologist . Technologies :
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Senior Bioinformatics Scientist . Basic research for early drug target discovery at Exploratory Science Center . I am an enthusiastic and energetic computer programmer specializing in mathematics and bioinformatics . As a Bioinformatician at Yale School of Medicine Child Study Center , I Analyzed data to support hypothesis that WNT pathway gene expression in early brain development is important for autism Designed oligonucleotides for in vitro assessment of enhancer activity in organoids Implemented new computational workflows to streamline analysis of sequencing data Computed the noncoding regulatory network explaining the trajectory of frontal cortex development in neurotypical and ASD individuals I graduated in 2019 with a PhD from the University of Pennsylvania in Genomics and Computational Biology . My dissertation provided new computational tools for handling data heterogeneity in large RNA seq datasets for splicing analysis in order to further both basic biology and medical research . I believe that more information and deeper analysis will improve the diagnosis and treatment of disease . My doctoral dissertation was enabled with Python , MATLAB , R , C , C , and Bash .. Technologies :
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Professor . . Specialties : Computational genomics . Alternative splicing . RNA surveillance . Nonsense mediated mRNA decay . Personal genome interpretation . Metagenomics . Bioinformatics . Structural genomics . Protein structure . Protein function prediction . RNA structure . RNA function . Phylogenomics . Structural biology . Evolutionary biology . Computational biology . Education training . Note : I log into LinkedIn only once every year or two . Please email brenner compbio.berkeley.edu rather than LinkedIn messaging .. Technologies :
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Research Scientist . Elucidated to reconstitute and solve the structure of STRIPAK PP2A core complex in Hippo Pathway using Cryo EM single particle reconstruction . . Single Particle Cryo EM electron microscopy Operation of FEI Titan Krios Talos Arctica Data Analysis for Cryo EM and Negative Stain Data Processing X ray Crystallography A lot of experiences in X ray data collection for crystals of protein and protein nucleic acid complex using Synchrotron source Pohang Light Source S. Korea , Photon Factory Japan , Spring 8 Japan and APS US Proficient in crystal handling surgery , seeding , dehydration , heavy atom derivative , cross linking Expertise in Computational tools Familiar with Windows UNIX Linux operating systems software Phaser , Molrep , ARP wARP in CCP4 suit , CNS , Solve Resolve , PHENIX system , Coot , Aline , ESPript , HKL2000 , EMAN2 RELION , etc Expertise in the operation of Biophysical tools FPLC and HPLC for the column chromatography affinity , ion exchange and size exclusion ITC Isothermal Titration Calorimetry for the interaction of protein peptide or protein nucleic acid MALS multi angle light scattering for determining the absolute molar mass Spectrophotometer for UV Vis , FI , FP , TRF Lum Operation of Hydra II , The Crystal Gryphon Mosquito for protein crystallography screening Expertise in Biochemistry Protein over expression system E. coli , Baculovirus HEK 293 Vector design reconstruction , and LIC Ligation independent cloning , ex , Gibson cloning Design of Experiments in vitro assay system Improvement of stability or solubility of protein EMSA the gel electrophoretic mobility shift assay Footprinting assay for DNA or RNA In vitro transcription and In vitro translation . Technologies : Xray;CryoEM;ITC;SLS DLS;FP
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nucleic acids;proteins;interaction;stability;structure
|
Bioinformatician I . Bioinformatician in the O'Donnell Luria lab at Boston Children 's Hospital . . I am interested in computational biology , bioinformatics , data science , and using computation to bridge the gap between research and healthcare . Topics that interest me include genomics , protein folding , blockchain and cryptocurrencies , and IoT devices .. Technologies :
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Volunteer , Science News Writer . . . Technologies :
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Secondment Project Research Scientist at AstraZeneca . I have been awarded the UKRI UK research and innovation award to start a secondment at AstraZeneca applying high throughput screening of small molecule libraries to identify compounds that block the interaction of RAS with one of its downstream effectors p110 a member of the PI 3 kinase family . . My work centres on several cancer drug discovery projects , in collaboration with pharmaceutical and academic institutions , all with the aim of targeting RAS signalling in cancer . These projects involve assay development and early hit characterisation using different modalities with a focus on small molecules and cyclic peptides . Below is a summary of the projects and collaborations I am working on and managing : Screening tool development : I was awarded an Crick ideas to innovation i2i grant to collaborate and work with AstraZeneca AZ to screen small molecules that inhibit the RAS PI3 K protein interaction . I worked in AZ laboratories in Cambridge with the assay experts to develop a screening assay that is suitable for the RAS PI3 K interaction . Through this work I actively engaged with Promega to collaborate and successfully reverse engineer a commercially available cellular screening assay for use as a cell free biochemical tool , which I named the NBBA Nano BiT Biochemical Assay . In March 2021 , received a UKRI UK research and innovation award to start a secondment at AstraZeneca applying high throughput screening of small molecule libraries to identify compounds that block the interaction of RAS with one of its downstream effectors p110 a member of the PI 3 kinase family . Early hit identification PROTAC development : I was awarded 12 months of Crick translational funding i2i , assigned for the development of early ideas with translational potential , to identify small molecule fragments which could differentially bind to specific KRAS isoforms ; the ultimate aim of developing warheads for isoform specific PROTAC approaches . I worked closely with GSK scientists embedded at the Crick and hired CRO Domainex to apply in silico fragment screen . This work is currently in progress . Early hit identification Cyclic peptides : I collaborated with colleagues at Southampton University to screen cyclic peptide libraries that could potentially block the RAS PI3K. In this project , we used a technique called SICLOPPS Split Intein mediated Circular Ligation of Peptide and Proteins . I developed and improved the screening assay for high throughput screening . I discovered a specific cyclic peptide that inhibits the RAS p110 interaction . I am currently writing up the manuscript for publication .. Technologies :
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molecular glues;peptides;proteins;small molecules;interaction;screening
|
CR1 HDR . Study of the physico chemistry of collagen I liquid crystal phases . Synthesis of collagen matrices mimicking living tissues bone , tendon , cornea Electron and Cryo electron microscopy . Th matiques de Recherche Macromol cules biologiques et leurs assemblages organis s : cristaux bidimensionnels ou cristaux liquides et matrices organis es . Etudes de l'effet des param tres physico chimiques pH , force ionique , la nature de l'acide sur les phases cristal liquide du collag ne I constituant majoritaire des matrices extracellulaires . Techniques par microscopie lectronique et photonique lumi re polaris e et multiphotons collaboration LOB , Palaiseau . ou et RMN collaboration LCMCP , Paris . Proc d s de polym risation et de mise en forme des polym res et de leur assemblage afin d obtenir des biomat riaux pour des applications m dicales . D veloppement d une corn e artificielle Contrat FRM DCM20121225759 . D veloppement d'un tendon artificiel . Pansement pour la d livrance de produits actifs . . Technologies : CryoEM
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structure
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Senior Computational Chemist . Computational chemistry , cheminformatics , system administration and user support in the section for Biostructural Research . . Competent and inventive researcher with good collaboration skills . My background as MSc Pharm . provides me with an overview of the drug discovery and development process , which eases communication with colleagues and collaborators with different backgrounds and expertises . I have worked within computational medicinal chemistry since I started my PhD in 2003 and gained extensive experience with most molecular modeling techniques . I have experience with multidisciplinary drug discovery projects in close collaboration with medicinal chemists , molecular pharmacologist , structural biologists and data scientists from both academia and industry . I have worked in the interface between molecular modeling and other fields of research and one of my key roles have been to interpret experimental data in a structural context and suggest new experiments and compounds based on structures and models of ligand protein complexes . In recent year my focus has changed from traditional small molecule ligands to peptides as agonists of GPCRs and inhibitors of downstream signalling pathways . Specialties : GPCRs , G proteins and ligand gated ion channels . Most computational chemistry and molecular modeling techniques . Structure based design of peptides and small molecule ligands Linux system administration and user support . Teaching at the university level I am part of the Gloriam Group gloriamgroup.org , which has G Protein Coupled Receptors GPCRs as the main research focus . Additionally , we host the GPCRdb gpcrdb.org , which contains reference data , interactive visualisation and experiment design tools for GPCRs . GPCRdb curates sequence alignments , structures and receptor mutations from literature . Interactive diagrams visualise receptor residues e.g. snakeplot and helix box plot and relationships e.g phylogenetic trees . Join the GPCRdb LinkedIn group https : www.linkedin.com groups GPCRdb 8104679 about to be updated on new releases , publications etc .. Technologies :
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Scientist . . In vitro pharmacology scientist with extensive experience in in vitro assay development , high throughput screening , biochemical assays , and antibody characterization . Successfully worked in group settings and collaborated with different groups within the company . Helped establish and manage the lab . A high performing scientist who is detail oriented , adaptable and a team player .. Technologies :
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antibodies;characterization;screening
|
Postdoctoral Fellow . . I am very experienced in biochemistry , cell biology , molecular biology , structural biology X ray crystallography and cryo EM , and epigenetics . I am also experienced in membrane and soluble protein biology . My long term career goal is to establish my own research program as an independent investigator , focusing on decoding the crosstalk between DNA methylation , histone modification , and histone writers readers using structural and cell biological approaches . I also pursue to leverage the mechanisms and regulations of DNA methylation on chromatin to develop human therapies to treat cancers .. Technologies : Xray;CryoEM
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proteins;structure
|
Doctoral Researcher . Developing image processing tools for cryogenic electron microscopy data : single particle analysis SPA and tomography cryo ET Implementing and maintaining software packages open source based on mathematically advanced algorithms and parallel processing schemes MPI and CUDA Combining signal processing with tools from different fields for cryo EM data analysis such as Normal Mode Analysis NMA , Molecular Dynamics MD simulations , Optical Flow , Machine Learning , Dimensionality Reduction , etc Communicating and working closely with biologists daily interaction for data collection , methods employability and results interpretation My thesis is funded from 2 ANR projects the French Agency for National Research . On going PhD in BioImage Informatics Electronics engineer with two masters in science and technology Skilled in image signal processing , machine learning and programming . Technologies : CryoEM
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PhD Graduate Student . . US Army veteran that graduated with a Bachelors of Science in Biology from the University of Missouri Kansas City . Currently I am working on my PhD in Biophysics under Dr. Timothy Grant at the University of Wisconsin Madison . The Grant lab collaborates with research groups across campus to solve challenging protein structures using single particle Cryo Electron Microscopy Cryo EM . To meet the challenge of these samples , we are often resort to developing novel methods in computation and sample preparation . My long term goal is to conduct research using Cryo EM in an industrial or academic setting using interdisciplinary approaches to study the structure and function of proteins .. Technologies : CryoEM
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membrane proteins;characterization;structure
|
Principal Scientist . . . Technologies :
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Staff Scientist , BioInformatics . I am a part of the Bioinformatics Applications Development team at PacBio . Our team goal is to facilitate interaction between internal and external collaborating scientists in the development of cutting edge applications for next generation genetic sequencing technology . My specialty is in targeted sequencing and assay development . I work closely with groups of other scientists to bring products to market . . Experienced Staff Scientist with a demonstrated history of working in the biotechnology industry . Skilled in Sequence Analysis , DNA Sequencing , Bioinformatics , Python , Assay Design for rare diseases , and Evolutionary Biology .. Technologies :
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Senior Scientist . . . Technologies :
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CRTA Post bac Fellow . Developing algorithms to improve the quality of cryo electron microscopy images . . I plan on applying to physics PhD programs in the fall of 2022 .. Technologies : CryoEM
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Assistant Professor . Computer Science Research and Teaching . Combining bioinformatics and data science in AI and deep learning research and education . . I am an experienced educator in the field of informatics with a passion for solving complex real life problems using data driven decision making process .. Technologies :
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Senior computational scientist . . Interests in genomics of complex diseases , bioinformatics , systems biology , statistics , genetics , molecular medicine , OOP , OOD , software architectures , project management , agile methods , intelligent systems .. Technologies :
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Research Fellow . . . Technologies :
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Senior Scientist . . Protein scientist with experience in engineering proteins , production , characterization , and determination of the high resolution structure using X ray crystallography . Current focus is on antibody discovery and engineering for cancer immunotherapy and neurodegenerative diseases .. Technologies : Xray
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antibodies;proteins;characterization;engineering;structure
|
Quantitative Analyst . . Researcher in machine learning .. Technologies :
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Directorial Board of PSI . The Paul Scherrer Institute , PSI , is the largest research centre for natural and engineering sciences within Switzerland . We perform world class research in three main subject areas : Matter and Material ; Energy and the Environment ; and Human Health . By conducting fundamental and applied research , we work on long term solutions for major challenges facing society , industry and science . . Prof. Gebhard Schertler , PSI ETH Z rich , is investigating G protein coupled receptors GPCRs . When the group was located at the MRC Laboratory for Molecular Biology Cambridge , UK , they focused on 3D structural analysis by X ray and electron crystallography and solved the atomic structures of GPCRs rhodopsin , beta adrenergic receptors . With this expertise , Schertler and his team successfully revealed the mechanisms of light induced rhodopsin activation Prof. Gebhard Schertler , PSI ETH Z rich , is investigating G protein coupled receptors GPCRs . When the group was located at the MRC Laboratory for Molecular Biology Cambridge , UK , they focused on 3D structural analysis by X ray and electron crystallography and solved the atomic structures of GPCRs rhodopsin , beta adrenergic receptors . With this expertise , Schertler and his team successfully revealed the mechanisms of light induced rhodopsin activation and agonist binding to a GPCR . Since his move to the PSI in 2009 , Schertler established an interdisciplinary research group on GPCRs , including crystallography , electron microscopy , NMR , biophysics and bioinformatics and a platform for protein expression purification crystallization . He is also responsible for biological applications on the Swiss Free Electron Laser SwissFEL and is involved in the experimental setup and design of biology beamlines for optimization of both biomolecular ocrystallography and biological X FEL imaging . He is heading the Department for Biology and Chemistry at the Paul Scherrer Institute PSI and he is Professor for Structural Biology at the ETH in Z rich , Switzerland . Since 2011he is in the Directorial Board of the Paul Scherrer Institute , this is the largest research institute in Switzerland . Specialties : Membranprotein Crystallisation . Microdiffraction . Femtosecond Second Crystallograph . X FELs . G Protien Coupled Receptors . Complex Neural Connections in the Retina . Technologies : Xray;NMR
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membrane proteins;expression;screening;structure
|
Associate Professor . . Specialties : cryo electron microscopy , image processing , biochemistry , bioinformatics . Technologies : CryoEM
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proteins;structure
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Principal Research Associate . I am working as a Principal Research Associate on evaluating new Antibody Drug Conjugate technologies ADC 's and screening of innovative new targets to utilize their internalizing properties for payload delivery . . After six years of experience as a normal Works Council Ondernemingsraad member , I have taken up the responsibility and currently am chairman of the Genmab B. V. Works Council . This during exciting times of transforming from small biotech to a profitable company preparing for launching its own product . During this process of adding commercial disciplines and growth there is a strong focus on globalization of the organization . . Principal Research Associate Chairman of the Works Council Ondernemingsraad . Technologies :
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antibodies;screening
|
Of Counsel . Patent Attorney . Scientific Experience , Structural Biology , especially NMR cf . NMR Script for Biochemist of the University of Frankfurt , X Ray Cristallography cf . Cell Structure paper , Cryo EM Diploma Thesis , Molecularbiology , Biotechnology , Immunology Developmental Biology PhD Thesis , Pharmacology addional subject at university , Bioinformatics development of a tachistoscope simulator , IP Experience , Patent Litigation , nullity and infringement actions as far as BGH , opposition and appeal proceedings before the EPO , Patent Prosecution , all levels of grant procedure , specialized in patenting second medical use applications i.e. viral vaccines , pharmaceutical and cosmetical protein and peptide formulations , medical diagnostic methods based on molecular biology methods , development of new adjuvants . Patent Consultance Freedom to Operate Analysis , Patentportfolio Management , Counsel in Patent Trading , Counsel in early development processes .. Technologies : Xray;CryoEM;NMR
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Scientific leader Programme SLP . . Experienced research assistant with skills in transmission electron microscope , cryo EM , high performance computing , molecular dynamic simulation , shell scripting , molecular cloning , circular dichroism , high performance liquid chromatography , mass spectrometry . Message are welcome . : . Technologies : CryoEM;CD
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proteins;structure
|
Head Of Clinical Operations . . I completed my PhD at the University of Zurich in the group of Prof. Markus Seeger , where I studied the biochemistry and structural biology of siderophore transport . During my PhD I had the opportunity to learn different experimental methods , including X ray crystallography , Cryo EM and NGS . In 2018 I started a position as head of clinical operations in the Molecular Tumor Profiling Lab of the University Hospital Zurich , where I am directing the clinical efforts of the lab . In parallel to my current position , I am studying to earn a Msc . in Business Administration MScBA to further develop my carrier .. Technologies : Xray;CryoEM
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Senior Lecturer in Computational Biochemistry . . Biomedical researcher , with several years postdoctoral experience including several positions with team leading responsibility . Especialized in Computer aided drug design and structural bioinformatics , several collaborations established with both academia and biopharmaceutical sectors . Currently Senior Research Fellow at Uppsala University . Present Goals Structural modeling and molecular simulation in G protein coupled receptors GPCRs . See GPCR ModSim web server at http : gpcr.usc.es Implementation of binding free energy calculations in the pipeline of Virtual Screening and CADD . Application of Structural Bioinformatics and CADD in other biopharmaceutical projects , provided that a collaborations with experimental groups exist . Topics of my interest include structural and functional effects of single point mutations in human proteins disease mutations or pathogen proteins resistances as well as ligand protein interactions , within the scope of computer aided drug design or chemical genetics projects . Specialties : Computer aided drug design , structural bioinformatics , computational chemistry , project and team management . Technologies :
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Drug Discovery Scientist . . An interdisciplinary scientist with a strong background in Computational Medicinal chemistry , Structural bioinformatics , Pharmacogenomics . SKILLS : Structure Based Drug Design Multi Scale Modeling Simulation of Biological Macromolecules Machine Learning and Artificial Intelligence in Drug Discovery Pharmacogenomics and Adverse Drug Reaction , Drug s Mechanisms of Action and Resistance Programming languages : Pascal , C , Python Tools : DEEPCHEM , AUTODOCKVINA , VMD , NAMD , GROMACS , AMBER , GAUSSIAN , MODELLER , CLUSTALW2 , BEDTOOLS , SAMTOOLS , GALAXY , BIOCONDUCTOR , PHARMCAT , SMART LINK , TYPESTREAM KEY ACTIVITIES : Leading a study on pharmacogenomics and adverse drug reaction in the Vietnamese population including SCARs and DILI Investigating the interactions of Spike protein on coronavirus with antibodies and nanobodies using molecular dynamics simulation Designing a universal vaccine based on hemagglutinin epitope regions highly conserved among Influenza A virus clades Identifying and optimizing hundreds of lead compounds , building the Vietherb database which has nearly 10.9k metabolites for drug development Leading the Computational Biology Center and teaching Computer Aided Drug Design and Bioinformatics , Supervising postdocs , 4 Ph.D. and 10 MSc students . ACHIEVEMENTS : Published 90 scientific papers and two databases https : vietherb.com.vn https : genome.vinbigdata.org about http : cbc.bio.hcmiu.edu.vn people https : scholar.google.com citations user kYhcPQ8AAAAJ hl en PROFESSIONAL ACTIVITIES Associate Editor for BMC Human Genomics , Current Pharmaceutical Design , MedPhaRes , Editorial Board Member of Nature Pharmacogenomics Reviewer of Nature , BMC Bioinformatics , Journal of Biological Systems , Journal of Computer Aided Molecular Design , Medicinal Chemistry Research , Journal of Chemical Physics Conference Co Chair of Genomic Medicine 2015 , 2017 , 2019 Project Joint Coordinator of gLINK , Erasmus Mundus Action II http : www.glink edu.eu Scientific Committee member of GIW2013 and GIW2014 . Technologies :
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Principal Investigator . . Being a molecular biologist by training , I am biased to see recurring patterns and potential pathways in a given set of data . That is why I believe a sharp mind per se is not enough to be successful in science . It takes a lot of hard work , alertness and luck in addition to brains to get there . In other words , blood , sweat and tears . Well , that is a challenge most of us are willing to take , otherwise , what would we be doing here I think I would not be so wrong if I ve said we all have curious minds and we love to wonder why . I needed to satisfy the hunger of my own curious mind it was almost inevitable for me to end up in science . Following this desire , I did my undergraduate studies on Molecular Biology and Genetics and continued with graduate studies on Molecular biology Genetics Biotechnology . During my studies , I was always thrilled to work in a variety of different fields from antibiotic production in bacteria to forensic medicine . I believe a well trained mind is only achieved by constant challenge . That was the point I kept in my mind especially during my M.Sc . studies , while I was working on human genetics , giving seminars about structural biology software , and working in a private clinic at the same time . When I started my PhD at the ETH Zurich , I of course did not have anything less in mind . Currently , I am a Principal Investigator at University of Helsinki and Wihuri Research Institute . My current research interests are focused on i studying the role VEGFRs and their interactions in regulating organ specific vascular responses and ii developing therapeutic targeting strategies against obesity and diabetes induced adipose tissue inflammation and vascular leakage . Technologies :
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small molecules;interaction;screening
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Senior Scientist , Computational Biology and Machine Learning . . . Technologies :
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Senior Scientist . iPSC derived immunotherapy . Highly motivated and creative molecular cell biologist with multidisciplinary knowledge . Have a strong problem solving skills and developing strategic solutions . Excellent interpersonal skills and really enjoy working in a team . 10 years of experience in molecular and cellular biology 7 years of Massively Parallel Signature Sequencing MPSS of non coding RNAs 5 years of non coding RNAs study in host Innate Immunity Cell culture of immune cells and stem cells , protein characterization , ELISA , etc . Small animal handling experience ; IV injection , perfusion , brain and spine tissue slicing and staining Over 10 years teaching and mentoring master students , interns and research assistant level scientists Demonstrated ability to adapting to new projects in cross functional laboratories Transfer accomplishments by presenting posters and talks at national and international conferences Computer analysis skills : Origin , Paravision , Amira and Illustrator Language : fluent in English and Mandarin Chinese . Technologies :
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BIOVIA Scientific R D Development Manager , Biologics Modeling . . Experienced Science Research Specialist with a demonstrated history of working in academia . Skilled in Python , JavaScript , Life Sciences , Structural Bioinformatics , Scientific Visualization , and Molecular Biology . Doctor of Philosophy Ph.D. in Biophysics from Humboldt University of Berlin . . Technologies :
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Computational Chemist Biologist . . Experienced professional with a demonstrated history of working in the pharmaceutical industries . Skilled in molecular dynamics , systems biology , agent based modeling , machine learning and AI , and computational chemistry biology .. Technologies :
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Senior Staff Scientist . . Highly motivated Scientist with broad spectrum of skills and extensive experience in target discovery and validation in oncology and immune oncology . My most valued qualities are exceptional ability of problem solving , independent thinking and analytical skills , as well as outstanding leadership skills and audacity in making decisions . I have extensive experience in many molecular and cell biology techniques , as well as data integration for discovery of novel biology and mechanism of action of drug targets . I am currently looking for opportunities in meaningful , breakthrough innovative translational research to aid development of new disease treatments .. Technologies :
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Senior Bioinformatics Scientist . . The field of my research focus on disease related bioinformatics Acute Myeloid Leukemia , Parkinson s Disease , Naegleria Fowleri amoeba . The research assistance of jobs include analysis RNA seq , computer server and be a lecturer of bioinformatics to promoting Ensembl personal browser in Yang Ming University for 2 years . 8 years of experience in learning bioinformatics , which including 4 years of experience with next generation sequencing data .. Technologies :
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Non clinical study director . Research Project Lead for immunology programs . Manage a multi disciplinary team to deliver novel therapeutics to the oncology , neurodegenerative diseases , and virology pipeline . Design and oversee in vitro and in vivo validation and antibody screening , mechanism of action and biomarker development efforts for novel targets . Design and execute programs focused on large molecule , bi specific antibodies , antibody drug conjugates ADC and cellular therapeutic modalities . Establish and drive strategic external collaborations and manage CROs to facilitate preclinical development of candidate molecules . Oversee preparation of the GLP GMP regulatory submission documentations including patenting and pre IND applications to support clinical trials . . Result oriented professional with 7 years of scientific research experience in the fields of neuroscience , oncology , immunology , and infectious diseases and 3 years of professional managerial experience in a leading CRO . Seeking to build a career to utilize my skills that ensures personal and professional growth while being resourceful , innovative and flexible . Leader Researcher Philanthropist Social worker Achiever . Technologies :
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antibodies;quality;screening
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Bioinformatician . . I am a graduate student from George Mason University holding a Master 's degree in Bioinformatics and Computational Biology . I have completed my Bachelor 's in Computer Science Engineering . During my engineering , I have done projects in Java and python which involves text processing . I have worked on a bioinformatics research project for 7 months , which involved web development and biological data analyses . In my Master 's , I have completed coursework in R and Perl programming . My master 's thesis involved studying FGFR2 kinase mutations to find differences between cancer and syndrome causing mutations . Currently , I am working as a Bioinformatician at Dekker Lab and working on HiC data , Django and Nextflow . I am looking for job opportunities in the areas of Bioinformatics and Computer Science . . Technologies :
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Senior Research Scientist . mainly invole in planning and executing organic synthesis participate and give weekly update inputs in project meetings . . Primary activity in recent years included the design fragment structure based and synthesis of small molecule drug candidates towards determined target Key scientific contributor for several lead anticancer NCEs , which are in the early stage of development Knowledge of synthetic chemistry related to New modalities such as PROTACs and DECL etc . Established publication record in peer reviewed scientific journals . Technologies :
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Research Scientist . Structure based drug design . Structure determination of pharmaceutically relevant protein targets using X ray crystallography and cryo EM . Technologies : Xray;CryoEM
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proteins;interaction;structure
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Postdoc Scientist MedChem Targeted Protein Degradation . . Medicinal Chemist with a focus on targeted protein degradation . Former synthetic chem postdoc at Weizmann Institute of Science with Prof. London Organic Chemistry PhD at University of T bingen with Prof. Fleischer in the field of homogeneous transition metal catalysis .. Technologies :
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molecular glues;developing
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Principal Software Developer . . Principal Software Developer working as part of an AGILE team within the CASM group at Welcome Sanger Institute . Developed CaVEMan substitution calling algorithm for NGS data . Specialties : Python , Perl , SQL , XML , C , Data Analysis Applications , New Sequencing Technologies , Bioinformatics , Database Design , Sequence Analysis , Git , Subversion , Linux , Agile . Technologies :
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Research Investigator . Structure guided drug discovery utilizing X ray crystallography . . Experienced Researcher with a demonstrated history of working in the higher education institute . Skilled in Protein Biochemistry , Biotechnology , Cell Culture , Molecular biology , Microscopy . Hands on experience on most of the biophysical techniques , including x ray crystallography and cryo EM . Currently , utilizing x ray crystallography and cryo EM in the field of drug discovery . Published research articles in reputed journals . Strong research professional with a Ph . D focused in Protein biochemistry and structure biology from Institute Of Microbial Technology .. Technologies : Xray;CryoEM
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proteins;small molecules;structure
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Postdoctoral Researcher . As a member of the Pharmaceutical Development Biologics department In Silico Team and in collaboration with the Biotherapeutics Discovery department in Ridgefield , I contribute to the design , optimisation and development of biologicals . I am involved in several aspects of R D of clinically relevant antibodies and apply regularly several sequence and structure based approaches . Besides actively participating to the developability assessment of internal BI candidates , I implemented the use of molecular dynamics simulations within the internal pipeline and developed models to drive the selection of the best candidates . . I am an experienced computational chemist and molecular modeler with strong expertise in molecular simulations , bioinformatics and drug design . I have an additional experimental background in spectroscopy and advanced optical techniques . Several international research experiences have influenced my ability to adapt to various groups and to work in a team oriented environment . I am deeply interested in developing tools for pharmaceutical research and in solving challenging problems in drug discovery . Presently , I am working as a Postdoctoral Researcher at Boehringer Ingelheim in the Pharmaceutical Development Biologics department . Here , I take actively part in all aspects of in silico antibody assessments and in the implementation of novel advanced tools for the internal pipeline . Specialties : . Molecular dynamics simulations and analysis of trajectories NAMD , GROMACS , VMD . Enhanced sampling techniques such as Umbrella Sampling , Free Energy Perturbation or Metadynamics . Quantum mechanical calculations such as DFT or ab initio MP2 Gaussian , ADF , Turbomole , Dalton , ORCA . Force field parametrization of small molecules ffTK , Antechamber , CGenFF . Homology modelling and structural biology . Bioinformatics BLAST , Clustal , Abysis . DNA and protein sequence analysis . Engineering and simulation of full length and multi specific antibodies . Molecular docking and Monte Carlo conformational search Autodock Vina , Macromodel . Molecular visualization and movie preparation VMD , MOE , Maestro , Blender . Scripting and data analysis Python , Bash , Tcl , SVL , Matlab . Main developer of MembraneMixer plugin VMD and ORCA interface for ffTK VMD . Machine Learning and classification models . High Performance Computing environments Blue Waters , TACC and Cloud Computing Azure . Technologies :
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Principal Scientist . Molecular modelling Protein formulation and biophysics . I hold a M.Sc . in Biochemistry and a PhD in protein structure from the University of Copenhagen . For 20 years , I have worked with optimization of functional properties of industrial enzymes since 2011 in the Global Research Unit at Novo Nordisk A S with focus on functional and developability optimization of large proteins . I have experience with research project planning and execution from early discovery to development . I thrive in an innovative , flexible and dynamic working environment with cross disciplinary and international project teams .. Technologies :
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proteins;characterization;formulation
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Associate Computational Biologist . Neale Lab . . Technologies :
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Associate Scientist Molecular Biology I Cell Biology I Metabolic diseases I Drug target Discovery . Research focus involves developing therapeutics to treat metabolic diseases . Contributing majorly in drug target discovery projects . Broad understanding of GPCR related targets . . Expert in monoclonal antibody , ADC , bispecific antibody , and small molecule screening , understanding drug mechanisms in pre clinical models in vitro and in vivo . Successful collaborations with multidisciplinary teams . Wide knowledge of in vitro , ex vivo and in vivo experiments . Expert for cell molecular biology experiments such as plasmid cloning , DNA transfection , qPCR , flow cytometry , CRISPR Cas9 , immunoassays , RNA scope , tissue spatial transcriptomics , histology other cell based assays . Experienced in determining effect of single molecule , combination or triple combination in mouse models of metabolic diseases . Well versed in scientific presentations , statistical analysis of research data , scientific interpretation and writing . Extensive 12 years life science experience of developing cancer and metabolic disease therapeutics . International research experience in preclinical screening of anti cancer drugs for major pharmaceutical clients . Experienced industry and academic research professional in the field of Biochemistry , Molecular Biology , Cell Biology , Oncology , Biotechnology and Pharmaceutical research . Expertise : New target discovery , Program leadership , Team management , Project management , Process development , Drug Development , Preclinical Research and Development . Expert in monoclonal antibody , antibody drug conjugate , bi specific antibody , and small molecule screening , understanding drug mechanisms in pre clinical models in vitro and in vivo . Leading successful collaborations with multidisciplinary teams , across departments , industries , and academic institutes . Experienced in cutting edge molecular biology and analytical methods , efficient science communicator and writer .. Technologies :
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antibodies;membrane proteins;small molecules;screening
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Senior Research Scientist . . Self motivated senior molecular cell biologist with fifteen years of biologics and small molecule drug discovery experience from leading pharmaceutical companies Expertise in the design , generation and characterization of fit for purpose biologics drug molecules , including bispecific antibodies , Fc engineered antibodies and fusions with alternative scaffold proteins Extensive experience in Immuno Oncology by evaluation and optimization of Fc engineered antibodies for tumor immunotherapy Extensive expertise on drug target identification validation , HTS , assay development , mechanism of action studies Proven strong abilities to do innovative research , solve complex problems , and make critical scientific judgments with many prestigious publications Extensive experience in scientific presentation , project managements and research collaboration . Technologies :
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antibodies;biologics;developing;engineering;screening
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Research Specialist III . Researcher structural TEM for biology and EM lab manager . Specialized in : Cryo TEM , negative staining and data processing . Automated data collection single particles and tomography . Protein , protein DNA and RNA complex structure determination . . Researcher in a structural TEM lab . Electron microscopy lab manager and electron microscopy and data processing intructor . Assessing new projects and collaborations , working with students as well as leading my own research projects . Specialties : biophysics , structural biology , transmission electron microscopy , cryo EM , negative staining , image data processing , single particles , 3D reconstruction of molecular complexes protein , protein DNA , tomography . Technologies : CryoEM
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proteins;structure
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Senior Entomologist . Innovation Projects to Proof of Concept stage i.e. to identify , appraise and support emerging technologies in relation to insect control methods on a global scale . . I am a behavioural ecologist with interests ranging from analysis of individual behaviours to modelling population dynamics . Previous work has included describing mosquito host seeking behaviour using machine vision and machine learning , as well as individual based modelling of both natural and artificial systems , focusing on vector control interventions , for example bednet design . My work currently centres on innovation and product development with Rentokil Initial for the control of insect urban pest and disease vectors . Prior to mosquitoes I have worked with fish , beetle , aphid and parasitoid wasp species .. Technologies :
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Director of Bioinformatics , Oncology . . Ph.D. in Computational Biology . Three times Illumina Value Award for driving tissue and liquid biopsy product dev and academia collaborations . 12 years experience in machine learning and bioinformatics . 10 years experience in developing clinical grade NGS tests in both NIPT and Oncology . Strong analytical and programming skills . Interested in building algorithms and predictive models to interpret large scale biological data . . Technologies :
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PHD Student . Department for Structural Biochemistry AG Engel Research Topic : Assembly of eukaryotic ribosomes is centred around the four ribosomal RNAs rRNAs . The nascent ribosomal RNA precursor contains three of these rRNAs and is transcribed by the RNA polymerase Pol I machinery . In contrast to other polymerases , Pol I has evolved a minimal , but extremely specific and highly regulated set of transcription factors for the synthesis of its sole target . Over the past years , structural analysis of Pol I and its transcription machinery has revealed stunning differences but also striking similarities with Pol II and Pol III . We used X ray crystallography to solve the first 3D structure of the entire 14 subunit , 590 kDa Pol I enzyme from yeast at atomic resolution Engel et al . , Nature 2013 . Combining results from crystallography with recent advances in cryo electron microscopy cryo EM now allows the application of an integrated structural biology hybrid approach for the analysis of transient , regulatory complexes . This enabled us to study transcription initiation intermediates Engel et al . , Nature Communications 2016 , elongation complexes Neyer et al . , Nature 2016 and multi factor DNA RNA protein assemblies active in transcription Engel et al . , Cell 2017 . Continuing and expanding the structural analysis of Pol I and its transcription machinery with this integrated approach hold the promise to generate textbook knowledge about the critical process of rRNA synthesis common to all eukaryotic cells . In combination with biochemical analysis Lisica , Engel et al , PNAS 2016 and Engel , Meth . Mol . Biol . 2016 we pursue a hypothesis driven experimental approach . . As part of the group of Prof. Dr. Engel at the Department for Structural Biochemistry within the Biochemistry Center Regensburg at the University of Regensburg , I am working on my PhD thesis in the field of structural biochemistry using cryoEM and various other techniques . I have received my Master of Science and Bachelor of Science in biology from the University of Regensburg , Germany . My master thesis Analysis of archaella preparations from selected Pyrococcus furiosus strains was done in archaeal structural microbiology at the Centre for Electron Microscopy at the University of Regensburg in the group of Prof. Dr. R. Rachel . My bachelor thesis Heterologous expression of the transcription elongation factors Spt4 and Spt5 from Pyrococcus furiosus was done in archaeal molecular microbiology in the group of PD Dr. W. Hausner at the chair of Prof. Dr. M. Thomm .. Technologies : Xray;CryoEM
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proteins;expression;structure
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Scientist TME , Clara Drug Discovery . . Data scientist , Computational Structural Biologist , Big Data enthusiast : Working at the interphase of GPCR Structural biology , Chemoinformatics , Drug discovery , Machine Learning , and High performance Cloud computing . Technologies :
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Science Department Faculty Member . Teaches approximately one hundred and fifteen sophomores in high school level chemistry . Communicates with parents , counselors , and other members of the faculty on strategies to best meet the learning goals for each student . Prepares lesson plans to meet current NGSS teaching standards . Participates in various professional learning communities and offers input and feedback regarding the school s mission . . I am highly interested in the intersection of computer science , statistics , and their applications to human health . In recent years , the cost of genetic sequencing has reached a new low , allowing researchers to utilize far more data so that the study of complex biological models may be possible . It is quickly becoming an exciting field full of possibilities . I look forward to an exciting future in teaching , researching , and working in the medical field . During my time at Cornell , I have focused my studies using a broad range of classes , from biology laboratory courses to computer science and math courses . I 'd like to put those studies to good use , helping to advance biological research and our understanding of human health . Please contact me at : ajf256 cornell.edu . Technologies :
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Lab Manager . . . Technologies :
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Graduate Student . . I 've worked in structural biology for five years . We focus on single particle analysis of ENaC , a highly flexible membrane protein . I 've developed functional assays , cloned new constructs , developed our purification workflow , and performed electrophysiological studies of the channel . Additionally , I built and maintained all of our lab 's computational infrastructure . I am our lab 's system administrator , and have helped set up several other lab 's computation resources . I also wrote and developed a variety of tools that are used daily in multiple labs at OHSU , including Appia , a web based chromatography processing package .. Technologies :
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membrane proteins;structure
|
Director , Bioinformatics Biostatistics Core . . . Technologies :
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Vertex Fellow . . Experienced researcher with a demonstrated history of working in the biotechnology industry . Skilled in Mammalian Cell Culture , Molecular Biology , Tissue Engineering , Matlab , and Python . Strong research professional with a Doctor of Philosophy Ph.D. focused in Biomedical Engineering from Harvard University . . Technologies :
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Senior Research Associate . . Currently working at R D Department and mainly involved in : High Throughput Screening of enzymes on different properties purification , stability , activity HTS friendly antibody detection , purification and quantitation using ELISA and analytical techniques Assay Development Downscaling application conditions to laboratory scale and setup reliable predictable assays FPLC HPLC related work i.e. enzyme purification , quantification , product analysis , sugar polymer analysis Molecular Biology gene cloning , expression , different PCR techniques . Technologies :
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antibodies;screening;stability
|
Scientist . . I am currently a Scientist on the Discovery Team at Metagenomi . I completed my PhD in Chemistry and Chemical Biology at UCSF where I studied ribosome targeting antibiotics and resistance through ribosome modification . I elucidated how mutants of the rRNA modifying enzyme Cfr obtained through directed evolution cause increased resistance . I performed structural analysis of stalled ribosome complexes obtained by cryo EM to determine the molecular basis of translation inhibition by oxazolidinone antibiotics . I received my BS in Chemistry concentrating in Biochemistry from UNC Chapel Hill . For my honors thesis , I performed stereoselective synthesis of fluorinated tryptophan analogs to interrogate the binding and recognition of methylated lysine by the HP1 chromodomain through unnatural amino acid mutagenesis . Publications 1 . Tsai K , Stojkovi V , John Lee D , Young ID , Szal T , Vazquez Laslop N , Mankin AS , Fraser JS , Fujimori DG . 2022 . Structural basis for context specific inhibition of translation by oxazolidinone antibiotics . Nat Struct Mol Biol . doi:10.1038 s41594 022 00723 9 Authors contributed equally 2 . Tsai K , Stojkovi V , Noda Garcia L , Young ID , Myasnikov AG , Kleinman J , Palla A , Floor SN , Frost A , Fraser JS , Tawfik DS , Fujimori DG . 2021 . Directed evolution of the rRNA methylating enzyme Cfr reveals molecular basis of antibiotic resistance . eLife . doi:10.7554 eLife.70017 3 . Stojkovi V , Ulate MF , Hidalgo Villeda F , Aguilar E , Monge Cascante C , Pizarro Guajardo M , Tsai K , Tzoc E , Camorlinga M , Paredes Sabja D , Quesada G mez C , Fujimori DG , Rodr guez C. 2019 . cfr B , cfr C , and a New cfr Like Gene , cfr E , in Clostridium difficile Strains Recovered across Latin America . Antimicrob Agents Chemother 64 . doi:10.1128 AAC.01074 19 4 . Mavor D , Tsai MK , Kampmann M , Fraser JS . 2018 . Extending chemical perturbations of the ubiquitin fitness landscape in a classroom setting reveals new constraints on sequence tolerance . Biol Open 7 . doi:10.1242 bio.036103 5 . Chang JC , Findley DJ , Cunningham CM , Tsai MK . 2014 . Considerations for Effective Lidar Deployment by Transportation Agencies . Transp Res Rec 2440:1 8 . doi:10.3141 2440 01 . Technologies : CryoEM
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proteins;interaction;structure
|
Staff Computational Systems Biologist . Responsibilities include research , development , and productization of algorithms and methods that operate over biological networks and genomic data , driving innovations for Ingenuity Pathway Analysis IPA and Variant Analysis VA products . In particular , leading design and implementation of statistical algorithms and other features available in VA e.g. statistical association filters , pedigree inference , ancestry prediction , druggable pathways , as well as developing and prototyping causal analysis algorithms for IPA e.g. Pathway Activity Analysis . IPA is a web based application to interpret biological data that has been broadly adopted in the life science research community . VA is a widely used tool to identify causal variants in human sequencing data . . Experienced scientist with expertise developing advanced computational algorithms in biology , chemistry , and physics . Proven ability to provide scientific and technical leadership , and deliver innovative solutions and product features . Experienced working in interdisciplinary and cross functional settings in collaboration with domain scientists and software engineering teams . Recent projects involve biological interpretation of genomic and gene expression data , network algorithms , ontology derived pathway models , and statistical genetics . Interests : predictive modeling of biological systems , gene regulatory networks , statistical and biological physics , machine learning , data analysis and visualization , computer science and software design patterns . Skilled programmer with extensive software development experience in Python and C including scientific computing using Numpy , Scipy , Pandas , scikit learn , and Matplotlib libraries .. Technologies :
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Scientist Electron Microscopy . . Structure biologist by training from membrane protein biochemistry to hands on single particle cryo EM . Now collecting experience of electron microscopy in a GMP environment .. Technologies : CryoEM
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membrane proteins;structure
|
Lead R D Scientist . Key responsibilities : . Developing and executing a research program technology program independently to support a project goal . Functional representation of Immunology Cell biology department ICB in four technical global project Ophthalmology Gene therapy , Oncology and Infectious diseases teams in antibody based drug discovery and development until Ph0 . Plan , design and supervise a research program technology program or experimental strategies within the context of department and or project goal in Ophthalmology , Gene therapy , Oncology and Infectious diseases . Key achievements : . Led an establishment of a tandem team concept between ICB and Lead ID departments to streamline collaboration and work between the departments . Wrote and presented target proposal for a new antibody based drug Immunology . Provided the key data for the patent filing Oncology . Led automation of cell based assays within the Immunology Cell biology department . Led collaboration with an academic partner University of Oslo . Three talks : Ab engineering for PK improvement underestimated indirect outcomes at Large Molecule DMPK exchange meeting Effector function meeting ; New insights into antibody hinge Fc functionality at Effector function meeting . Four scientific publications in high impact journals such as Science Translation Medicine or Journal of Experimental Medicine . Scientist by training with multidisciplinary experience and thriving in immunology and antibody based drug discovery fields with 15 publications in prestigious international peer reviewed journals as main author or co author . High sense of responsibility with an agile working culture . Has led research projects in academia and industry with collaboration with multiple teams across the globe Karolinska Institutet , Harvard Medical School and Roche Diagnostics .. Technologies :
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antibodies;developing;engineering
|
Associate Professor . . I currently hold a Royal Society University Research Fellowship at the University of Warwick where I lead a research group in modelling and simulation applied to a range of challenges in pharmaceutical science , biomedicince and bio nanomaterials science . I have a strong track record in collaborative research , working closely with both academic scientists from a range of disciplines and industrial partners . Keywords : modelling and simulation , computational chemistry , biomolecular simulation , molecular dynamics , multi scale modelling , data analysis , high performance computing , computational biophysics , computer aided design , drug design and discovery , drug delivery . Publications : http : www.researcherid.com rid C 2066 2009 Website : www.warwick.ac.uk go notmangroup . Technologies :
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Scientist Protein Sciences . . My interest lies in connecting the dots between protein structure and it s function . Protein biochemist and biophysicist with 9 years of experience on working with membrane proteins folding using detergents , lipid vesicles , bicelles and nanodiscs and their characterization using Circular Dichroism and fluorescence spectroscopy , NanoDSF , MST , ITC , DSC , DLS , SEC MALS Currently working on large membrane protein complexes and understanding their structure using Cryo EM . Trained to prepare grids and do negative staining and visualizing the grids on Talos L120C .. Technologies : CryoEM;ITC;SLS DLS;DSC;MST;DSF;CD
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membrane proteins;proteins;characterization;interaction;stability;structure
|
Assistant Professor . Research focus : Transcriptional regulation Non coding RNAs in brain AI in disease prediction . Dr. Dong received a Ph.D. degree in Bioinformatics in the University of Bergen and a Postdoctoral fellowship in Bioinformatics and Integrative Biology at University of Massachusetts Medical School . Dr. Dong is now an Assistant Professor of Neurology in Harvard Medical School and the founding Director of Genomics and Bioinformatics Hub https : bioinformatics.bwh.harvard.edu in the Harvard affiliated Brigham and Women 's Hospital in Boston , leading the Bioinformatics team working on neurodegenerative diseases such as Parkinson 's disease , Alzheimer 's disease , Huntington 's disease , etc . He is interested in developing and applying computational methods to understand the transcriptional regulation of the human genome , by integrating genomic , transcriptomic , epigenetic , and clinical data from both healthy subjects and patients with neurological diseases . Dr. Dong has 40 publications with 19000 citations and an H index of 23 . He has made several web based tools to facilitate the research of long range gene regulation . He is familiar with various NGS data analysis , incl . ChIPseq , RNAseq , RNA PET , CAGE , and WGS data . He was an active member of the ENCODE consortium . He is particularly interested in the non coding RNAs miRNA , eRNA , circRNA , etc . in the brain . Dr. Dong is recently funded by the American Parkinson Disease Association APDA , NIH R01 , U01 , R41 , and Aligning Science Across Parkinson 's ASAP . See his website for more details : http : sterding.github.io Specialties : Knowledge of gene regulation , neurodegenerative diseases , comparative genomics , NGS lib design , and small RNA ; Skills in algorithm development , data integration , visualization , parallel computing , statistics , and various NGS data analysis .. Technologies :
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. . I am an aspiring medicinal chemist chemical biologist developping PROTACs for epigenetic proteins .. Technologies :
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molecular glues;developing;interaction
|
Director of Bioinformatics , iHope Genetic Health . Thrilled to be part of a dynamic team paving the way for equitable access to clinical whole genome sequencing , research and treatment across the globe through the iHope Genetic Health Program . . Vani Rajan brings a decade of bioinformatics experience in the clinical diagnostic setting . Her passion is in developing efficient , large scale processes to enable individuals access to their own genetic information . Prior to joining Genetic Alliance , she was a Manager of Bioinformatics at Illumina Inc , where she managed the bioinformatics operations supporting the service lab s clinical whole genome sequencing for proactive health and patients with rare and undiagnosed diseases . Additionally , she has pushed continuous process and analytical improvements to the laboratory and bioinformatics pipeline respectively through software efficiencies . Vani graduated from Georgia Tech in 2011 , with a Master of Bioinformatics , and Carnegie Mellon University in 2010 , with a Bachelor of Science in Electrical and Computer Engineering and a Bachelor of Science in Biomedical Engineering .. Technologies :
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Masters Researcher . Working at the intersection of computer vision and psychology with Karttikeya Mangalam under Professor Jitendra Malik . . M.S. EECS student with deep interests in artificial intelligence , computer science , and mathematics . Motivated by theory and the scientific method , currently interested in replicating human behaviors in computer vision systems .. Technologies :
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Head of Quantitative Research . . I am a computational physicist and quantitative researcher , with expertise in data science , machine learning , and applying machine learning to exciting problems in fundamental science and mathematical finance hedge fund quantitative research and decentralised finance . I use and develop advanced machine learning techniques , including deep neural networks and Bayesian inference . I have expertise in computer programming , particularly C and Python , advanced mathematics , theoretical physics , computational biology , quantitative finance , statistics , and applied data science . I am currently applying mathematical and quantitative finance strategies and models to the DeFi space , building up experience in blockchain , smart contracts , and fixed income derivatives strategies in cryptocurrency markets .. Technologies :
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Director and Head of Clinical Pharmacology . . It 's fair to describe my research background as eclectic . During my bachelor 's degree , I studied Astrophysics at Bishop 's University . During this time , I developed computer models of low mass close binary star systems . I completed my bachelors degree in Physics , Biology and Mathematics in 2002 . I completed my PhD. in cardiovascular physiology in 2007 where I developed a novel and ambitious computer model of electronic interactions between cardiac myocytes and fibroblasts . During my post doctoral work , I studied the effect of hypoxia upon myocardial excitation contraction coupling . For this work , I earned a post doctoral fellowship from the American Heart Association ; the first such award to be won in the state of Hawaii in over a decade . I began my industry career as a Principal Pharmacometrics Scientist at the Novartis Institute for Biomedical Research in Cambridge , MA . I divided my time between the Computer Aided Drug Design CADD and engineering clusters where I developed computer models of drug interactions . As Associate Director of Pharmacometrics at Biogen , where I was the clinical pharmacology lead on multiple platform and pipeline projects in the area of neurodegenerative diseases . I provide quantitative clinical pharmacology and modeling support for putative treatments for both MS , spinal muscular atrophy , and Alzheimer 's disease . I have just accepted a position as Director and head of Clinical Pharmacology at Dyne Therapeutics where I will plan and implement the clinical development of the FORCE platform for Muscular Dystrophy . In this role , I will be responsible for understanding and predicting the therapeutic dose levels for this unique modality .. Technologies :
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PHD Student . . Student and young researcher in Copenhagen . Interested in protein structure and now learning cryo EM .. Technologies : CryoEM
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proteins;structure
|
Staff Scientist . . . Technologies :
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Senior Bioinformatics Software Engineer II . . My research is focused on providing high level scientific expertise to create pipeline tools that enable next generation sequencing analysis . This includes whole genome , exome , bulk RNA , small RNA , ATACseq , scRNASeq and epigenomics NGS datasets using internal and external cloud computing resources and high performance computing . . Technologies :
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UK Dementia Research Insitute Emerging Leader . . Computer languages : Proficient in Perl , Bash scripts in Linux Unix environment Working knowledge of Python , C C , HTML , PBS scripts Statistical knowledge : Proficient in hypothesis testing continuous and categorical variables , ANOVA , logistic and linear regression , power calculations , non parametric hypothesis testing , association analysis , set based analysis , polygenic score analysis , whole genome association analysis , permutation tests , Principal Component Analysis PCA Statistical packages : SPSS , proficient in R Bioinformatics skills : Proven expertise in analysing DNA and RNA seq data SE PE ; directional and non directional Proven expertise in analysing gene expression data microarrays and RNA seq , including pathway analysis , e.g. GO InterPro categories analysis Proven expertise in handling and analysis of very large datasets Extensive expertise in mutation analysis : evolutionary conservation , nucleotide substitution rates , analysis of repetitive elements and micro lesions Experience in EM algorithm based clustering and tree based search algorithms Comprehensive knowledge of biological databases e.g. NCBI , UCSC and commonly used bioinformatics software Extensive experience in CNV analysis , including novel methodology Extensive experience in development of applications , including design of algorithms and implementation Extensive experience in support and maintenance of an array of Linux and Unix based multi processor servers software applications and hardware Lab based skills : Extensive experience in DNA handling , amplification and variant detection . Technologies :
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Bioinformatics Scientist . . Neuroscientist , Bioinformatician , and Cloud Solutions Architect .. Technologies :
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Senior QC Microbiologist . . I am currently working a six month contract at Amgen as a Microbiologist in the QC department , where I am gaining a high level of practical experience and skills . I hope to become part of a successful company with an aim to working in a scientific environment . I am an outgoing and competent person who works well with people . I have been employed in part time positions during my 4 years in college while maintaining a high level of academic work . I have completed an Honors Degree in Bio analytical Science in 2010 , through Tallaght Institute of Technology , following my degree I took part in the Innopharma lab training programme to further my knowledge and remain active within the pharmaceutical Science environment while I sought employment . Specialties : Medical Industrial microbiology : Culturing techniques , Fermentation , sterilisation etc . Immunodiagnostics : Immunology , Cell lines , polyconal antibody production , ab ag interactions , Immunoassays e. g. ELISA . Molecular diagnostics : DNA cloning Fingerprinting PCR methods , hybridisation techniques e. g Dot blots . Bio analytical techniques : Automated analysis , Chromatography e. g. HPLC , GC MS , CZE , NMR etc . Protein Bio chemistry : Separation of proteins Gel electrophoresis e. g. SDS page . . Technologies : NMR
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antibodies;proteins;interaction
|
Principal Bioinformatics Scientist . Genomics and Population Genomics Sequencing reference genomes and resequencing complete genomes of multiple individuals to identify , characterize and ultimately understand the DNA variation that contributes to phenotypes . Metagenomics and NGS Diagnostics Analysis of metagenomic data from high throughput sequencing for research and diagnostic applications including the design and validation of NGS diagnostics . Building and managing bioinformatics workflows for use in regulatory contexts . Adjunct Teaching I teach and develop CS department courses : Python programming with an emphasis on data science , Data structures and algorithms in Python , and Bioinformatics . These courses are targeted at non majors with the idea that computer science is the new math . . Computer scientist and bioinformatician with extensive experience in academia and the biotech industry . Throughout my career I 've enjoyed collaborative interdisciplinary projects at the intersections of computer science , statistics , and biology . I have specialized in the analysis of data derived from advanced sequencing technologies . I have authored 50 publications with over 6000 citations . As an adjunct , I enjoy developing and teaching interdisciplinary computer science courses accessible to non majors with the pretext that computer science is the new math .. Technologies :
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Chief Scientific Officer . Heading the R D efforts to develop new services . Overseeing assay development , refinement and extensions . Supporting marketing and business efforts . Supporting customer projects and interactions . Heading collaborations and in vitro safety developments . . R D in diabetes and obesity biology , cancer biology , lipid metabolism , cell signaling , and more . Peptide and small molecule drug discovery , target ID and validation . Functional cell assays and biomarkers . In vitro safety assays . New Approach Methods in Toxicology . Drug target safety assessment . GPCR functional selectivity . Cell and molecular biology . Protein Sciences . Biologics production . Line management . Project management . Supervisor . Lab manager . Lab safety officer . Technologies :
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Senior Computational Chemist . Working on Oxford Drug Design 's novel antibacterial programme . . . Technologies :
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Senior Machine Learning Scientist . . I am a computational biologist and machine learning researcher working at Freenome in San Francisco . We are actively developing a blood test to detect early stage cancer .. Technologies :
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Assistant Adjunct Professor Medicinal Chemist . As a member of the Institute for Neurodegenerative Diseases Drug Discovery group , I am working to advance our small molecule portfolio toward clinical trials . In partnership with other adjunct faculty at the Institute , including computational chemists , neurobiologists , cell biologists , analytical chemists and pharmacologists , I design and synthesize novel CNS drug candidates using cryo EM models , cellular and in vivo assay SAR data , ADME pharmacokinetics , and calculated drug like properties . A significant part of my role is to lead , train and mentor junior co workers in the chemistry lab , and I work closely with chemists at contract research organizations for analogs or small library synthesis and facilitate their progress by transferring synthetic routes and procedures from our laboratory at UCSF to the CRO . In addition to my contributions to medicinal chemistry , I initiate and contribute to the development of biological assays to support projects specific needs . . . Technologies : CryoEM
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small molecules;developing;structure
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Principal Scientist II . . Career Goal : Drug design discovery positions in the biotech and pharma fields where I can utilize my expertise in cryo electron micoscopy and structural biology . Career Path : While obtaining my BS in Molecular and Biological Sciences at UC Davis I performed undergraduate research in professor Neil Hunters lab and in Professor Marc Facciotti 's lab for a total of two years . Additionally I was a member of the UC Davis international Genetically Engineered Machine iGEM team in which we placed as finalists . After my undergraduate education I explored the biotech industry in order to experience research in the private sector and explore new fields of science . I received a job at Amunix Operating Inc. as a Research Associate right out of college and worked there for two years . At Amunix I worked on large scale protein purification , formulation , and protein chemical conjugation . Gradually I also became interested in structural biology and decided to explore it further by working an additional part time job in professor Ted Jardetzky 's lab at Stanford studying x ray crystallography . After working both jobs for a time I decided to gain a PhD to gain greater career opportunities in industry and to learn the field of structural biology . Shortly after starting my PhD in Chemistry and Biochemistry at UCSD I found a great interest in cryo electron microscopy cryo EM and joined professor Andres Leschziner 's lab . After just four and a half years in my PhD I am now publishing my manuscript https : www.biorxiv.org content 10.1101 2020.01.06.895367v1 . My work includes the solution of a high resolution structure of the Parkinson 's Disease associated protein LRRK2 and collaborative biochemical and cellular work on the protein 's interaction with microtubule filaments with the Reck Peterson , Villa , and Knapp labs . I currently plan to return to industry in a position where my 4 years of single particle cryo EM and structural expertise is utilized for drug discovery and design efforts . . Technologies : Xray;CryoEM
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proteins;small molecules;interaction;structure
|
Chief Technology Officer , Automated Science . . Scientific Technologies is a new kind of technology enterprise . Its mission is to create the radically different , science based technologies that we urgently need to address the greatest challenges of our times . One of the core foundations of the firm is Automated Science as an approach for transforming how science is done and what science is possible . As Chief Technology Officer Automated Science , I lead the strategic and technological development of our pipeline for automated reasoning and mechanistic model construction , parametrisation and empirical evaluation . This pipeline will enable the Automated Science needed to deliver radical impact at global scale in areas ranging from energy , food , climate mitigation to the intersection of financial markets and putting capital to radical purpose .. Technologies :
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Principal Scientist . . Business Administration : HD1 Foundation at Copenhagen Business School , CBS HD2 Specialization in Management Accounting amp ; Process Management at Copenhagen Business School , CBS Balanced Scorecard , Strategy Maps and Strategic Management Kaplan amp ; Norton Strategy Project in The Danish Maritime Safety Administration Farvandsv senet Health Sciences , Immunology and Biochemistry : Antigen Presentation and Protective Immunity Antibody Generation , Screening and Application Major Histocompatibility Class I , MHC I , Tapasin and Calreticulin Molecular Biology , Cloning Protein Chemistry , Protein Purification and Functional Characterization Immunochemistry Assay Development ELISA , AlphaScreen , SPA , FlashPlate , Surface Plasmon Resonance X Ray Protein Crystallography IT Development : Microsoft .NET Programming , C , MS Visual Studio 2005 2010 SharePoint 2007 , 2010 and ASP.NET Java Programming MySQL , MSSQL Database Structure Development , Implementation and Maintainance XML , SOAP Specialties : Business Administration : Strategy Development and Management Scientific Research : Human Immune System IT Development : Microsoft .NET , MSSQL and SharePoint . Technologies : Xray;SPR;ALPHA SCREEN
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antibodies;peptides;characterization;interaction;screening
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Senior Scientist . Built semi mechanistic SARs CoV 2 viral dynamic model contributing towards the FDA EUA approval of EVUSHELD mAb Developed Technical reports for submission to the regulatory agencies FDA , MHRA , EMA , TGA . . Trained in computational immunology with expertise in systems modeling approaches . I graduated with a Ph.D. in Translational Biology , Medicine , and Health with an expertise in computational modeling of infectious diseases . I have a background in Biomedical Engineering . During my master 's , I worked towards an advanced certificate program in Bioinformatics . I have a keen interest in the field of applied systems modeling , computational biology , healthcare data analytics , and bioinformatics . My thesis work involved building ordinary differential based mathematical models along with a data analytics pipeline for modeling the host immune responses against infectious diseases . I am currently employed at AstraZeneca Pharmaceuticals as a Systems Modeler within the Sytems Medicine in the Clinical Pharmacology and Quantitative Pharmacology department . My recent work at AZ involves building semi mechanistic viral dynamic models which contributed towards the EUA of the mAb against COVID19 .. Technologies :
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Research Team Lead . Promoted to Team Leader at BioAscent . Leading a team of chemists in the design and synthesis of target molecules to meet client requirements . I am currently a Team Leader Medicinal Chemistry at BioAscent . My personal experience is within the field of synthetic organic chemistry and its application to drug discovery . This includes modern techniques such as Fragment Based Drug Discovery and Targeted Protein Degradation . Technologies :
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molecular glues;small molecules;screening
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Principal Scientist , CVM Discovery . Multi OMICs data integration , single cell RNA Seq and spatial transcriptomics . . Technologies :
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Senior Manager , Scientific Research . . Carri Lyn Mead earned her Bachelor of Science degree from the University of Waterloo , Ontario , Canada and her doctorate in Genetics from the University of British Columbia , Canada , focusing on molecular interactions between genes and proteins implicated in psychiatric disorders . In between her undergraduate and doctoral degrees , Carri Lyn pursued a computer consulting career as an application developer and IT specialist with IBM . In 2003 , after realizing that she missed working in the scientific community , Carri Lyn chose to go back to school for her graduate degree . After completing her doctoral research Carri Lyn chose to seek out a position at Illumina that would enable her to capitalize on her computational and business training while following her passion for science within a company that is transforming genomics and how it is being applied to the clinic . While at Illumina , Carri Lyn has worked as a Scientific Liaison within Scientific Affairs , as a Whole Genome Interpretation Data Scientist in the Clinical Services Laboratory , as a Software Product Owner for the foundational design of Illumina 's Variant Interpreter , and within the Core Product Management Group where she focuses on evaluating contextualizing new and emerging technologies .. Technologies :
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Senior Scientist . . Supporting the research on new biological entities with the bioanalysis of pharmacokinetics studies Protein analytics on diverse aspects using ligand binding assays and mass spectrometry Doctorate in Proteomics and Bioanalytics More than eight years professional experience in the pharmaceutical industry Good team spirit , analytical mindset , accurate and well organized way of working , reliability , open minded personality , solution oriented methodology . Technologies :
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Senior Scientist . Front end Innovation , product development , biologics and haemostatic medical devices . . Innovative and curious protein chemist MSc . , PhD. with R D experience 11 years in industry and academia . Motivated by making a difference against disease and discovering new unique medicines . Experienced with pre clinical discovery , HTP expression , purification screening SPR of therapeutic antibody repertoires and leading cross organizational project discovery teams . Hands on experience with the latest nano and fluorescence based methods for running HTP MTP drug screening campaigns . Educated with project management research management courses . Experienced from biotech and pharma industry with all phases of preclinical drug discovery . From ideations with partners to project scoping , discovery and transfer to development . Research areas incl . , Therapeutic antibodies , preclinical discovery , protein engineering and HTP characterization GPCR s and mol . pharm . investigation of new ligands within nutrient sensing metabolism . Enzymes , surface mechanism regulation and new lead application research projects . Peptides , receptor and membrane associating peptides , regulation and function . Strong networker and communicator with several patents high impact publication list . Extensive experience working in a Global environment , with interdisciplinary and cross organisational projects and external collaborators . Specialties : Protein Chemistry Biochemistry Biophysics Molecular Pharmacology Protein Design and Engineering Cancer Immunology GPCRs TNFRs ILRs Synaptic proteins Enzymes Antibodies SPR Fluorescence Confocal and Electron Microscopy Assay Development Cell signalling assays HTRF assays Endocytosis Lipids and membranes . Technologies : SPR
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antibodies;enzymes;membrane proteins;small molecules;characterization;engineering;interaction;screening
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Director . . Academic with expertise in computational social science , data science and complex systems . Research active in social networks , the Web environmental science .. Technologies :
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Senior Director Distinguished Scientist . Experienced manager , currently leading a department of 30 drug discovery scientists Member of leadership teams driving portfolio decisions Strong foundational understanding across diverse therapeutic areas Cancer Immunology , Immunology , Oncology , Infectious Disease , Ophthalmology , Neuroscience . Experienced scientist and leader in the field of drug discovery across multiple drug modalities including protein therapeutics antibodies and cytokines , mRNA , anti sense oligonucleotides ASO and RNAi . I also have experience in different delivery technologies including antibody conjugates and lipid nanoparticles . I have moved several candidate molecules from discovery through to development as project team lead . I am currently leading a drug discovery department that is focused on discovery of protein therapeutics , gene therapy AAV and mRNA , ASO RNAi and cell therapy .. Technologies :
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antibodies;biologics;nucleic acids;proteins;developing
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Senior Scientist , Drug Product Development . . Expert in product development CMC of lipid based formulations Focus : liposomes , small molecules , siRNA . Experience in GMP production of sterile dosage forms . Writer of documentation used for filing IMPD IND ANDA . Proficient in applying Quality by Design principles in development of complex injectables familiar with Design of Experiments DoE . Experience in stability studies of viral vaccines . Practical knowledge in Continuous Improvement Lean Green Belt certified . Excellent scientific writing presentation skills . Passionate about training coaching others , learning knowledge sharing . Pro active , analytical , structured , disciplined , accurate , collaborative , creative , driver of change . Technologies :
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carriers;formulation;stability
|
Postdoctoral Researcher . Cryo EM Single Particle Analysis ; RNA Polymerase . . Technologies : CryoEM
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proteins;structure
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Post doctoral research fellow . Structural , biochemical and biophysical characterization of topoisomerase DNA complexes . Chercheuse dynamique et motiv e , j ai d velopp des comp tences dans l expression , la purification et la caract risation biophysique et biochimique de complexes biologiques au sein de diff rents organismes procaryotes et eucaryotes . J ai galement appris deux techniques principales de biologie structurale : la cryo microscopie lectronique et la cristallographie aux RX . Ces techniques m ont permis d aborder des sujets scientifiques une chelle mol culaire qui est importante dans le d veloppement de mol cules th rapeutiques . Au travers de mes diff rents projets de recherche , j ai pris un r el plaisir dans le d veloppement et l optimisation de protocoles biochimiques biophysiques . Ma capacit d adaptation et mon esprit d quipe m ont permis de travailler sur plusieurs projets en parall le et en collaboration avec des quipes pluridisciplinaires et internationales . Forte de ces exp riences , je souhaiterais mettre profit et enrichir mes comp tences en biologie au travers de nouveaux projets innovants appliqu s au domaine de la sant . Dynamic and motivated researcher , I have acquired skills in the expression , purification and biophysical biochemical characterization of biological complexes in different living organisms prokaryotes and eukaryotes . I also got advanced training in two main techniques of structural biology : cryo electron microscopy and X ray crystallography . Thanks to these techniques , I have developed skills to analyze different scientific projects at a molecular scale , important in drug design area . Throughout my various research projects , I really enjoyed developing and optimizing biochemical biophysical experiments . My ability to adapt and my team spirit have allowed me to work on several projects in parallel and in collaboration with multidisciplinary and international teams . With these experiences , I would like to use and strengthen my skills in biology through new innovative projects applied to the health field .. Technologies : Xray;CryoEM
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nucleic acids;proteins;characterization;structure
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BioInformatics Scientist . Software Engineering Medical Ontologies Natural language processing Dynamic visualization Engineering and implementation of variant interpretation tools for the Illumina Clinical services Lab . Continued development of existing front end applications for the analysis and interpretation of variants in Rare Undiagnosed diseases Design and development of a phenotype to gene tools which allows users to enter phenotype terms , provides suggested phenotypes from a dropdown of ontology based terms , includes synonyms of those terms in searches , queries OMIM for associated genes , disambiguates gene names and de synonymizes results . This gene lists produced can be uploaded and used to rank variants against closest fit to given phenotypes Development of backend variant annotation and filtering pipeline for reducing the number of variants that genomic councelors have to look at when analyzing cases Development of graphical user interface based system for monitoring sequencing progress and predicting analysis completion dates , for use by project managers running our labs Product owned , researched , designed and implemented the Basespace Variant Interpreter structural variant genome browser , using Java , ElasticSearch , Angular.js and HTML5 Canvas . The browser allows filtering of structural variants on the fly , display of annotations regarding those variants , and easy comparison of variant calls with coverage and b allele frequencies . Interim product owner for Basespace Variant Interpreter during its transition from a fledgling project through Concept and Feasibility stages . Implemented a web based genomic data copying system which has delivered over 70 T of data to customers with high reliability including automated check summing on external disks . . hiring I have 8 years now of BioInformatics software engineering , and 10 years experience as an MD in the UK . I 've been fortunate to be involved in some cutting edge work . I 'm currently working on indexing tools and genome visualization for multi omics and have designed and implemented PubMed gene disease relationship mining using Biobert , with overlying graph database APIs for use in variant interpretation and gene curation . As part of that project we have been using machine vision for recognizing phenotypes in photocopied clinical notes and I ve become a bit of an ontology guru . I ve developed skills in multiple languages across multiple compute platforms including AWS and SGE and tend to identify and take on greenfield projects . From time to time I ve taken on a product ownership role where required . I was Variant Interpreter product owner during its transition from a fledgling project to passing the Concept and Feasibility stages . I also worked on the Illumina knowledge base , Variant Interpreter genome browser used by Genomics England and others .. Technologies :
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Forschender Doktorand . Structural cryo EM and functional studies on the human MHC I peptide loading complex PLC . . Technologies : CryoEM
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peptides;proteins;structure
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Computational Chemist , Machine Learning . . Highly motivated researcher completing a PhD in Computational Biology at Cornell University under the mentorship of Dr. Haiyuan Yu . Interested in a range of network and structural biology topics including protein protein interactions , predicting interface residues of these interactions , and characterizing the impact of missense mutations on interaction stability . Recently completed work employing drug and protein docking to characterize the protein protein interactome between SARS CoV 2 and human . Currently investigating machine learning methods to enable rapid virtual screening and de novo drug design with a focus on protein protein interaction inhibitors . Anticipated completion of degree in Spring 2022 .. Technologies :
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