Medhat Mahmoud
@medhat.bsky.social
Postdoc, HGSC, Baylor college of medicine. Interests: Bioinformatics | SVs | SNVs | comparative genomics | data science
Pinned
Medhat Mahmoud
@medhat.bsky.social
· May 5
1/ 🧬 A Hitchhiker’s Guide to Long-Read Genomic Analysis is out now!
This mini-review walks through the latest advances in long-read DNA sequencing — from assemblies to variant calling to epigenetics.
Link 🔗 genome.cshlp.org/content/35/4...
🧵👇
This mini-review walks through the latest advances in long-read DNA sequencing — from assemblies to variant calling to epigenetics.
Link 🔗 genome.cshlp.org/content/35/4...
🧵👇
Reposted by Medhat Mahmoud
🚂 The T2T train keeps rolling: "The formation and propagation of human Robertsonian chromosomes" with Gerton and Garrison labs is out! What's a Robertsonian chromosome? Let Jen tell you herself in this great video, or read our paper: [1/3]
📺 youtu.be/JmlY5omxQVc
📄 www.nature.com/articles/s41...
📺 youtu.be/JmlY5omxQVc
📄 www.nature.com/articles/s41...
How Stowers Scientists Found the DNA Site Where Robertsonian Chromosomes Fuse
YouTube video by Stowers Institute for Medical Research
youtu.be
September 24, 2025 at 6:48 PM
🚂 The T2T train keeps rolling: "The formation and propagation of human Robertsonian chromosomes" with Gerton and Garrison labs is out! What's a Robertsonian chromosome? Let Jen tell you herself in this great video, or read our paper: [1/3]
📺 youtu.be/JmlY5omxQVc
📄 www.nature.com/articles/s41...
📺 youtu.be/JmlY5omxQVc
📄 www.nature.com/articles/s41...
1/ 🧬 A Hitchhiker’s Guide to Long-Read Genomic Analysis is out now!
This mini-review walks through the latest advances in long-read DNA sequencing — from assemblies to variant calling to epigenetics.
Link 🔗 genome.cshlp.org/content/35/4...
🧵👇
This mini-review walks through the latest advances in long-read DNA sequencing — from assemblies to variant calling to epigenetics.
Link 🔗 genome.cshlp.org/content/35/4...
🧵👇
May 5, 2025 at 2:08 PM
1/ 🧬 A Hitchhiker’s Guide to Long-Read Genomic Analysis is out now!
This mini-review walks through the latest advances in long-read DNA sequencing — from assemblies to variant calling to epigenetics.
Link 🔗 genome.cshlp.org/content/35/4...
🧵👇
This mini-review walks through the latest advances in long-read DNA sequencing — from assemblies to variant calling to epigenetics.
Link 🔗 genome.cshlp.org/content/35/4...
🧵👇
Reposted by Medhat Mahmoud
Transcriptomics in the era of long-read sequencing. #RNAseq #LongReads #Bioinformatics @naturerevgenet.bsky.social 🧬🖥️
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Transcriptomics in the era of long-read sequencing - Nature Reviews Genetics
Advances in long-read sequencing are driving the implementation of these technologies for transcriptome profiling. The authors provide a comprehensive guide to long-read RNA sequencing, including expe...
www.nature.com
March 29, 2025 at 10:18 PM
Transcriptomics in the era of long-read sequencing. #RNAseq #LongReads #Bioinformatics @naturerevgenet.bsky.social 🧬🖥️
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Medhat Mahmoud
@sedlazeck.bsky.social AMPath24 talk about long reads highlighting TRGT tool by @egor-dolzhenko.bsky.social and @guilhermesena1.bsky.social and others for HiFi sequencing by @pacbio.bsky.social
November 23, 2024 at 7:23 PM
@sedlazeck.bsky.social AMPath24 talk about long reads highlighting TRGT tool by @egor-dolzhenko.bsky.social and @guilhermesena1.bsky.social and others for HiFi sequencing by @pacbio.bsky.social
Reposted by Medhat Mahmoud
Good read about how the NIH functions. After 2 years as a new investigator I only now feel like I am starting to understand the process. This is one of the challenges for new investigators: why is the learning curve so steep?
I wrote about the National Institutes of Health and the various serious and unserious proposals for NIH reform that have been floating around. It is important to understand how this agency actually functions and point criticism at the right problems. A short 🧵:
Distinguishing real from invented problems with the NIH
How does the NIH work and where does it work well?
open.substack.com
November 24, 2024 at 6:00 PM
Good read about how the NIH functions. After 2 years as a new investigator I only now feel like I am starting to understand the process. This is one of the challenges for new investigators: why is the learning curve so steep?
Reposted by Medhat Mahmoud
I created a long-read sequencing starter pack. I'm still finding people on here, so apologies if I missed you. Please suggest people who should be added and I'll add them! go.bsky.app/JGkefsJ
November 11, 2024 at 5:05 AM
I created a long-read sequencing starter pack. I'm still finding people on here, so apologies if I missed you. Please suggest people who should be added and I'll add them! go.bsky.app/JGkefsJ
Reposted by Medhat Mahmoud
New method out for structural variants studies called Kanpig. Huge improvements on tandem repeat regions where 70% of sv are. Great new method from Adam English!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
October 26, 2024 at 5:29 PM
New method out for structural variants studies called Kanpig. Huge improvements on tandem repeat regions where 70% of sv are. Great new method from Adam English!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Medhat Mahmoud
I'm going to be advertising a PhD studentship (open to international students) working on long read pangenome / assembly algorithms in bacteria. Would suit someone with maths/compsci background. Aptitude and interest more important than experience. Do please spread the word. Advert to follow
October 22, 2024 at 5:56 PM
I'm going to be advertising a PhD studentship (open to international students) working on long read pangenome / assembly algorithms in bacteria. Would suit someone with maths/compsci background. Aptitude and interest more important than experience. Do please spread the word. Advert to follow
Reposted by Medhat Mahmoud
Also, for folks submitting NSF postdoc fellowships, we have a few successful examples of those here too. And please if you got one last year, consider submitting!
github.com/RILAB/statem...
github.com/RILAB/statem...
GitHub - RILAB/statements: Successful Job Applications and Grants
Successful Job Applications and Grants. Contribute to RILAB/statements development by creating an account on GitHub.
github.com
October 23, 2024 at 8:39 PM
Also, for folks submitting NSF postdoc fellowships, we have a few successful examples of those here too. And please if you got one last year, consider submitting!
github.com/RILAB/statem...
github.com/RILAB/statem...
Reposted by Medhat Mahmoud
Sharing on behalf of Andy Clark @ Cornell. Their Dept of Mol Bio and Genetics has an Asst Prof opening with a focus on human genetics and genomics this year: academicjobsonline.org/ajo/jobs/28554
Cornell University, CALS Molecular Biology and Genetics
Full service online faculty recruitment and application management system for academic institutions worldwide. We offer unique solutions tailored for academic communities.
academicjobsonline.org
October 22, 2024 at 9:46 PM
Sharing on behalf of Andy Clark @ Cornell. Their Dept of Mol Bio and Genetics has an Asst Prof opening with a focus on human genetics and genomics this year: academicjobsonline.org/ajo/jobs/28554
Reposted by Medhat Mahmoud
Join the T2T consortium next Thursday, Apr 4, 12-4pm EDT for a webinar focused on the wet side of ultra-long read sequencing. We will have a half-day of seminars from top experts in the field sharing their advice plus a Q&A. Free and open to all. Register here: ucsc-seqtech-events.online
T2T Nanopore Ultra-Long Workshop |
ucsc-seqtech-events.online
March 27, 2024 at 8:18 PM
Join the T2T consortium next Thursday, Apr 4, 12-4pm EDT for a webinar focused on the wet side of ultra-long read sequencing. We will have a half-day of seminars from top experts in the field sharing their advice plus a Q&A. Free and open to all. Register here: ucsc-seqtech-events.online
I imported 15 friends from Twitter to Bluesky
Import your Twitter follows to Bluesky
skygaze.io
December 29, 2023 at 5:11 PM
I imported 15 friends from Twitter to Bluesky
With an increasing number of suspected genetic disorders, there is a need for new tools to improve diagnostics rate. At @nanopore, I will discuss the potential of nanopore sequencing to uncover variants of complex mendelian bit.ly/40Go3rB
December 4, 2023 at 6:40 PM
With an increasing number of suspected genetic disorders, there is a need for new tools to improve diagnostics rate. At @nanopore, I will discuss the potential of nanopore sequencing to uncover variants of complex mendelian bit.ly/40Go3rB
Reposted by Medhat Mahmoud
NCI Spring School on Algorithmic Cancer Biology is happening again Apr 1-5 2024! The registration is now open, we invite trainees broadly interested in computational cancer biology to participate. Please apply and spread the word! ncifrederick.cancer.gov/events/confe...
November 20, 2023 at 9:48 PM
NCI Spring School on Algorithmic Cancer Biology is happening again Apr 1-5 2024! The registration is now open, we invite trainees broadly interested in computational cancer biology to participate. Please apply and spread the word! ncifrederick.cancer.gov/events/confe...
November 18, 2023 at 12:17 AM
Reposted by Medhat Mahmoud
Exciting news: We’re taking another step to making Bluesky an open network for public conversations.
Around the end of this month, we’ll release a public web interface. With this, you’ll be able to view posts on Bluesky without being logged in on an account.
Around the end of this month, we’ll release a public web interface. With this, you’ll be able to view posts on Bluesky without being logged in on an account.
November 16, 2023 at 5:15 PM
Exciting news: We’re taking another step to making Bluesky an open network for public conversations.
Around the end of this month, we’ll release a public web interface. With this, you’ll be able to view posts on Bluesky without being logged in on an account.
Around the end of this month, we’ll release a public web interface. With this, you’ll be able to view posts on Bluesky without being logged in on an account.
Reposted by Medhat Mahmoud
I was waiting for a great topic for my first Bluesky post, and I cannot thing of a better one: I’m thrilled to be hosting @aphillippy.bsky.social at Rice University today and looking forward to his talk at 4pm! events.rice.edu/event/345896...
Distinguished Lecture: Dr. Adam Phillippy
A Ken Kennedy Institute Distinguished Lecture by Dr. Adam Phillippy, Senior Investigator at National Human Genome Research Institute, National Inst...
events.rice.edu
November 14, 2023 at 3:59 PM
I was waiting for a great topic for my first Bluesky post, and I cannot thing of a better one: I’m thrilled to be hosting @aphillippy.bsky.social at Rice University today and looking forward to his talk at 4pm! events.rice.edu/event/345896...
Reposted by Medhat Mahmoud
A reminder of this faculty opening in the Dept of Human Genetics at UU. Applications are due Dec. 8. Please share!
The Dept of Human Genetics is hiring computational genomics faculty again this year! Last year we recruited Xiaoxu Yang - please apply to join him and our human, computational, developmental, and evolutionary genetics faculty. Please spread the word!
utah.peopleadmin.com/postings/153...
utah.peopleadmin.com/postings/153...
November 12, 2023 at 5:38 PM
A reminder of this faculty opening in the Dept of Human Genetics at UU. Applications are due Dec. 8. Please share!
Excited to be attending the ASHG 2023 Meeting next week in Washington, DC! I will be introducing the use of long-read sequencing technology to solve complex genomic regions. Looking forward to learning about the latest advances in human genetics and genomics research. #ASHG2023 #genetics #genomics
October 28, 2023 at 4:24 PM