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Linsheng Zhang's Learning & Education Webpage

😎Embracing the Future of Pathology and Laboratory Medicine😎

 

â—‰ My FLT3-ITD Nomenclature Webapp

      Feb. 28, 2023: The webapp now accepts API query and returns a JSON file.
      Python code example:

      
        import requests

        # input of sequencing result
        flt3_seq = 'CAATTTAGGTATGAAA......AAATGCTGAAAGGTACAGTA'       # Your FLT3-ITD sequence from NGS result 

        url = 'https://flt3-itd-nomenclature.ue.r.appspot.com/nucleotideSequence/'+flt3_seq
        r = requests.get(url)
        nomenclature = r.json()
        
        # the nomenclature you get is a dictionary:
        {'aaDupIns': 'NGMCQMFLQHFPRENLEFGK',                # full ins/dup aa sequence
        'aaLength': 20,                                     # itd aa length
        'additionalInfo': [                                 # additional information (in a list)
        "There is no insertion or variant(s) identified at the 3'-end of the ITD.", 
        'This FLT3-ITD involves the intronic region; ......'
        ], 
        'hgvsc': 'c.1816_1837+38dup',                       # nomenclature at cDNA level
        'hgvsg': 'chr13:g.28608181_28608240dup',            # nomenclature at chromosome level
        'hgvsp': 'p.K614_V615ins20[NGMCQMFLQH;605_614]',    # nomenclature at protein (aa) level
        'nucleotideDupIns': 'CCAAGAGAAAATTTAGAGTTTGGTAAGAATGGAATGTGCCAAATGTTTCTGCAGCATTTC',       # full ins/dup nucleotide sequence
        'nucleotideLength': 60,                             # flt3-itd length (nucleotide)
        'nucleotideSequence': 'CAATTTAGGTATGAAA......AAATGCTGAAAGGTACAGTA',       # the original sequence submitted
        'status': 'OK'}                                     # result status: OK or Error message
      
    

       Get nomenclature using curl:

 
      
        curl 'https://flt3-itd-nomenclature.ue.r.appspot.com/nucleotideSequence/[your_flt3_seq]' -0 'file_name.json'
      
    

â—‰ Navigating online databases to help interpret the clinical significance of cancer mutation profile. Click to visit the webpage

â—‰ A Molecular Pathology book Dr. Yi Ding (Geisinger Medical Center) and I edited (Published in July 2021, One of the Practical Anatomic Pathology Series):

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Find more information on Amazon
     This book may be available for free download from SpringerLink in many institutions. Check your institution's library electronic resources.

â—‰ Highly Recommended Great Books on artificial intelligence and the future of human being.
     Yes, I have read/listened to all of them. They are wonderful!

â—‰ Chinese American Pathologist Association (CAPA) 10th Diagnostic Course (October 19-20, 2024, Las Vegas)

â—‰ Molecular Hematopathology: Recent Updates and Practice Pearls. CAPA Online Education Program Lecture, July 7th, 2024.
     Click here to download the presentation slides in PDF format

â—‰ My Google Scholar Profile

 


My all time favorite symphony


This Website is Built by: Linsheng Zhang, MD, PhD. Emory University Pathology. September 2022.