Herald:The Biostar Herald for Monday, January 23, 2023

Question

[Biostar]

The Biostar Herald publishes user submitted links of bioinformatics relevance. It aims to provide a summary of interesting and relevant information you may have missed. You too can submit links here.

This edition of the Herald was brought to you by contribution from Ram, Istvan Albert, and was edited by Ram, Istvan Albert,

---

ScienceDirect (www.sciencedirect.com)

Current tools to simplify enrichment results by clustering them into groups either still produce redundancy between clusters or do not retain consistent term similarities within clusters. We propose a new method named binary cut for clustering similarity matrices of functional terms. Through comprehensive benchmarks on both simulated and real-world datasets, we demonstrated that binary cut could efficiently cluster functional terms into groups where terms showed consistent similarities within groups and were mutually exclusive between groups.

submitted by: Istvan Albert

---

Pierian, Seven Bridges, UgenTec Acquired, Merged to Become Velsera. The three firms were acquired by investment fund Summa Equity and merged to form a new Boston-headquartered company. https://t.co/fYO8TrgQGI

— GenomeWeb (@GenomeWeb) January 13, 2023

Pierian, Seven Bridges, UgenTec Acquired, Merged to Become Velsera. The three firms were acquired by investment fund Summa Equity and merged to form a new Boston-headquartered company.

submitted by: Ram

---

Modern Statistics for Modern Biology and includes R packages for data analyses in the ebook https://t.co/kJZI4p91jl

— Vega Shah (@dr_alphalyrae) January 17, 2023

submitted by: Istvan Albert

---

The online version of the "Modern Statistics for Modern Biology" book with Susan Holmes https://t.co/obiejJIy4R has been revamped, now rendered with Quarto.

— Wolfgang Huber 🇺🇦 (@wolfgangkhuber) January 17, 2023

submitted by: Istvan Albert

---

https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btad014/6989621

Here we describe miniprot, a new aligner for mapping protein sequences to a complete genome. Miniprot integrates recent techniques such as k-mer sketch and SIMD-based dynamic programming. It is tens of times faster than existing tools while achieving comparable accuracy on real data.

submitted by: Istvan Albert

---

Ten things you should know about transposable elements | Genome Biology | Full Text (genomebiology.biomedcentral.com)

Here, we introduce the fundamental properties of TEs and their complex interactions with their cellular environment, which are crucial to understanding their impact and manifold consequences for organismal biology.

submitted by: Istvan Albert

---

Thinking of submitting to @GenomeBiology? Is it work you're really excited about?

My advice? Don't!

Here's an email I sent a week ago: no reply. "Previous correspondence" = 5 polite enquires spread over >250 days.

I hope peer review is going better for you all 💚💙 pic.twitter.com/LUI25FokiK

— Amy Willis [e-mail] (@AmyDWillis) January 11, 2023

submitted by: Istvan Albert

---

Want to get the Biostar Herald in your email? Who wouldn't? Sign up righ'ere: toggle subscription