#Coronavirus
#Pandemic
#COVID_19
#SARS_COV2
#HRS_ACE2

🦠 An Interview With Dr. Ali Mir Azimi, The Iranian Supervisor of HRS_ACE2 Drug Design, a Targeted Drug For COVID_19 Treatment

🦠 مصاحبه ای با دکتر علی میرعظیمی، سوپروایزر ایرانی طراحی داروی HRS_ACE2 که دارویی هدفمند برای درمان کووید 19 است.

COVID_19



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#Cancer Biomarkers
#Cancer
#TMB
#Biomarker

What is tumor mutation burden and how can it helps to cancer diagnosis in early stages?



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SARS_CoV2 Mutations
جهش های SARS_CoV2

COVID_19 Pandemic



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#Cancer


Genetically manipulated cancer cells which can target their own


New Cancer Treatment



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The relationship between COVID-19 severity and genetic background

ارتباط بین زمینه ژنتیکی و شدت کووید۱۹



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3rd series of BioUT private online-workshops

- R programming (5 compact practical session)
- Python programming (5 compact practical session)
- MATLAB programming (5 compact practical session)
- Julia programming (5 compact practical session)
- Git (1 compact practical session- on other products)
- Statistics (5 compact session)
- General Math (5 compact session)
- Constraint based metabolic networks modeling (5 compact practical session)
- Computational genomics (5 compact practical session)
- Machine learning (5 compact practical session)

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#Bioinformatics #computational_biology #ArtificialIntelligence #Python #MachineLearning #R #Julia #Git #Statistics #Math

Git cheat sheet



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یکی از راه های ارائه داده های خروجی یک پروژه علمی ارائه آن داد ها در ضمیمه مقالات است ولی یکی از بهترین راه های ارائه این گونه داده ها اجرا دیتا پرتال های علمی بوده که کاربر به جای مواجه با حجم عظیمی از جداول در آن بر اساس نیاز پارامترهایی را تغییر داده و خروجی رو مشاهده می کند.
در خصوص طراحی و اجرا دیتا پرتال های علمی بر اساس نیازمندیهای کاربران پروژه هایتان با ما در تماس باشید (مشاوره رایگان)، نمونه ی دیتا پرتال 👇👇👇
https://apsic.shinyapps.io/APSiC/
https://apsic.shinyapps.io/aps2/




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python_cheat_sheet




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با سلام خدمت همراهان عزیز،
برای پروژه مطالعاتی با موضوعیت مهندسی متابولیک به یک نفر همکار مسلط به زبان انگلیسی و زیست شناسی و علاقه مند به مهندسی متابولیسم نیازمندیم.
برای معرفی یا ارسال رزومه به ادمین کانال مراجعه بفرمایید.


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Base editing successfully treats progeria in mice

https://www.broadinstitute.org/news/base-editing-successfully-treats-progeria-mice



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Global computational alignment of tumor and cell line trannoscriptional profiles



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Cell lines are key tools for preclinical cancer research, but it remains unclear how well they represent patient tumor samples. Direct comparisons of tumor and cell line trannoscriptional profiles are complicated by several factors, including the variable presence of normal cells in tumor samples. We thus develop an unsupervised alignment method (Celligner) and apply it to integrate several large-scale cell line and tumor RNA-Seq datasets. Although our method aligns the majority of cell lines with tumor samples of the same cancer type, it also reveals large differences in tumor similarity across cell lines. Using this approach, we identify several hundred cell lines from diverse lineages that present a more mesenchymal and undifferentiated trannoscriptional state and that exhibit distinct chemical and genetic dependencies. Celligner could be used to guide the selection of cell lines that more closely resemble patient tumors and improve the clinical translation of insights gained from cell lines.

https://www.nature.com/articles/s41467-020-20294-x



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Vaginal Transmission of Cancer from Mothers with Cervical Cancer to Infants

Matthew Meyerson:
"Inheritance of cancer from mother to child during the birth process! Extraordinary findings from elegant genomic analysis by Takashi Kohno, Chitose Ogawa and colleagues.
Quote Tweet
"
https://www.nejm.org/doi/full/10.1056/NEJMoa2030391




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Method of the Year: spatially resolved trannoscriptomics 💣🧨💣🧨

Understanding the organization of cells and tissues and how this organization influences function is a fundamental pursuit in life sciences research. Over the years, technological advances have shed much light on these aspects of biology. Sequencing approaches have allowed us to learn about cell types and their heterogeneity in complex tissues, and methodological advances in microscopy, including super-resolution and single-molecule imaging, have transformed our understanding of cell and tissue structure and function. Our Method of the Year, spatially resolved trannoscriptomics, highlights how these technologies have matured and expanded to give biologists exceptional views of the biology of single cells while retaining information on spatial context.

https://www.nature.com/articles/s41592-020-01033-y



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Fun lab picture that captures the playful nature of the team




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Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma

•
A systematic inventory of HNSCC-associated proteins, phosphosites, and pathways
•
Three multi-omic subtypes linked to targeted treatment approaches and immunotherapy
•
Widespread deletion of immune modulatory genes accounts for loss of immunogenicity
•
Two modes of EGFR activation inform response to anti-EGFR monoclonal antibodies

https://www.cell.com/cancer-cell/fulltext/S1535-6108(20)30655-3?rss=yes&utm_source=dlvr.it&utm_medium=twitter



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Summary
We present a proteogenomic study of 108 human papilloma virus (HPV)-negative head and neck squamous cell carcinomas (HNSCCs). Proteomic analysis systematically catalogs HNSCC-associated proteins and phosphosites, prioritizes copy number drivers, and highlights an oncogenic role for RNA processing genes. Proteomic investigation of mutual exclusivity between FAT1 truncating mutations and 11q13.3 amplifications reveals dysregulated actin dynamics as a common functional consequence. Phosphoproteomics characterizes two modes of EGFR activation, suggesting a new strategy to stratify HNSCCs based on EGFR ligand abundance for effective treatment with inhibitory EGFR monoclonal antibodies. Widespread deletion of immune modulatory genes accounts for low immune infiltration in immune-cold tumors, whereas concordant upregulation of multiple immune checkpoint proteins may underlie resistance to anti-programmed cell death protein 1 monotherapy in immune-hot tumors ...



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