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1 You Are Your Longest Relationship: Artist DaQuane Cherry on Psoriasis, Art, and Self-Care 32:12
Dissecting the binding mechanisms of Transcription Factors to DNA with Dr Patrick CN Martin
Manage episode 300730644 series 2859702
Welcome to Episode 28 of The Genomics Lab! On today's episode we talk to Dr.Patrick CN Martin who is a postdoctoral researcher at the University of Copenhagen. He completed his PhD in Dr Radu Zabets lab in 2020 where he investigated the binding mechanisms of transcription factors to DNA. His research involved development of an R package, ChIPAnalyser. A user-friendly, versatile and powerful R/Bioconductor package predicting and modelling the binding of TFs to DNA. ChIPanalyser performs similarly to state-of-the-art tools, but is an explainable model and provides biological insights into binding mechanisms of transcription factors to DNA. His research focused on investigating the binding mechanisms of three TFs that are known architectural proteins CTCF, BEAF-32 and su(Hw) in three Drosophila cell lines (BG3, Kc167 and S2). Aside from his research, Patrick enjoys coding, astrophysics and is now working in the exciting field of spatial transcriptomics! We also discuss the use of clinical data in genomics research, learning to code and bioinformatics. Hope you all enjoy! (See below for links)
Patrick's twitter: https://twitter.com/pcnmartin
Patrick's paper: https://www.sciencedirect.com/science/article/pii/S2001037020304736?via%3Dihub
ChIPAnalyser Bioconductor package: https://www.bioconductor.org/packages/release/bioc/html/ChIPanalyser.html
34 episodes
Manage episode 300730644 series 2859702
Welcome to Episode 28 of The Genomics Lab! On today's episode we talk to Dr.Patrick CN Martin who is a postdoctoral researcher at the University of Copenhagen. He completed his PhD in Dr Radu Zabets lab in 2020 where he investigated the binding mechanisms of transcription factors to DNA. His research involved development of an R package, ChIPAnalyser. A user-friendly, versatile and powerful R/Bioconductor package predicting and modelling the binding of TFs to DNA. ChIPanalyser performs similarly to state-of-the-art tools, but is an explainable model and provides biological insights into binding mechanisms of transcription factors to DNA. His research focused on investigating the binding mechanisms of three TFs that are known architectural proteins CTCF, BEAF-32 and su(Hw) in three Drosophila cell lines (BG3, Kc167 and S2). Aside from his research, Patrick enjoys coding, astrophysics and is now working in the exciting field of spatial transcriptomics! We also discuss the use of clinical data in genomics research, learning to code and bioinformatics. Hope you all enjoy! (See below for links)
Patrick's twitter: https://twitter.com/pcnmartin
Patrick's paper: https://www.sciencedirect.com/science/article/pii/S2001037020304736?via%3Dihub
ChIPAnalyser Bioconductor package: https://www.bioconductor.org/packages/release/bioc/html/ChIPanalyser.html
34 episodes
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1 Transposons and epigenetic priming of enhancers within early human embryo development with Dr Christopher Todd 1:26:40

1 Neuroscience meets epigenetics - Doctor Ben Rein 1:27:07

1 Spatial transcriptomics with Dr Patrick CN Martin 1:17:27

1 Epigenetics & fertility with Alka Gupta 1:11:46

1 Biomarkers in genomics with Dr Paul Okunieff 54:59

1 The dark matter of the genome with Sudarshan Pinglay 1:09:23

1 The immune system: B cells and Epigenetics with Dr Hamish King 1:14:31

1 Epigenetic biomarkers of exposure to tobacco smoke : A biosocial approach with Alexandria Andrayas 1:02:21

1 Dissecting the binding mechanisms of Transcription Factors to DNA with Dr Patrick CN Martin 1:10:52

1 Remote control of gene expression: enhancers and the 4D genome with Professor Wendy Bickmore 1:16:42

1 Rattlesnakes and Population Genomics with Kat Ivey 1:11:04

1 Making connections between epigenetics and evolution with Dr Peter Sarkies 1:21:20

1 Epigenetic regulation in neurodegenerative diseases with Dr Sarah Marzi 1:06:30


1 Non-CG Methylation and its Role in Development with Dr Ozren Bogdanovic 59:35

1 The association between socioeconomic factors, the methylome and heart failure with Dr Mark Pepin and Dr Adam Wende 1:07:02

1 Extrachromosomal circular DNA, chromosome evolution & circular DNA in human disease with the Regenberg Lab (Dr Birgitte Regenberg and Dr Sam Keating) 1:10:37

1 Single Cell Technology Development and Spatial Omics with Dr Cátia Moutinho 1:10:38

1 The importance of DNA damage in all areas of disease and the potential for personally tailored oncological treatments based on the analysis of DNA damage using machine learning, with Dr Anna Poetsch 1:09:35

1 Cancer epigenetics & the role of Ybx1 in fine tuning PRC2 activity to control embryonic brain development with Dr Myron Evans 1:07:12

1 The role of Yq-linked genes in fertility and offspring sex ratio with Dr Peter Ellis 1:17:25

1 DNA methylation & epigenetic reprogramming during development with Dr Maxim Greenberg 1:13:50

1 The Role of Mitochondrial Quality Control Pathways in Familial and Non-Familial Variants of Disease, with David Tumbarello 1:09:29

1 Evolutionary genomics- exploring the genomic basis of biological adaptations and transitions with Dr Jordi Paps Montserrat 1:10:31

1 Genomic analysis of the Ashanti Dwarf pig of Ghana and Sustainable agricultural production utilising genomic tools with Sethlina Naa Dodua Aryee 1:08:50

1 Celebrating Women in STEM for International Women's Day, with Dr Louise Beard and Dr Michelle Taylor: Bonus Ep2 1:02:42

1 CTCF binding, nucleosome positioning and 3D chromatin organization with Dr Christopher Clarkson 1:07:32

1 Designer Babies, Disseminating Science, and Dinosaurs with Professor Darren Griffin 1:13:47

1 Running a genomics core facility and discussing careers in genomics - Nicky Hales 51:34

1 Social media in academia and networking as a PhD student - Joseph Festa and Brad Richardson (Bonus Ep1) 1:09:53

1 Using explainable AI to understand the enhancer histone modification code - Jareth Wolfe 58:42

1 Epigenetic biomarkers of exposure to tobacco smoke : A biosocial approach - Alexandria Andrayas 59:18

1 Identifying genetic variants for inherited retinal disease - Laura Whelan 56:49

1 How neuroepigenetics can help us to better understand spinal cord injury -Jess Chadwick 49:05
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