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8 papers · 1 filter
Multiple-scale structures: from Faraday waves to soft-matter quasicrystals
Samuel Savitz, Mehrtash Babadi, Ron Lifshitz
For many years, quasicrystals were observed only as solid-state metallic alloys, yet current research is now actively exploring their formation in a variety of soft materials, incl…
Quantifying homologous proteins and proteoforms
Dmitry Malioutov, Tianchi Chen, Jacob Jaffe +4
Many proteoforms - arising from alternative splicing, post-translational modifications (PTMs), or paralogous genes - have distinct biological functions, such as histone PTM proteof…
Minimap2: pairwise alignment for nucleotide sequences
Heng Li
Motivation: Recent advances in sequencing technologies promise ultra-long reads of 100 kilo bases (kb) in average, full-length mRNA or cDNA reads in high throughput and genom…
Global metabolic interaction network of the human gut microbiota for context-specific community-scale analysis
Jaeyun Sung, Seunghyeon Kim, Josephine Jill T. Cabatbat +5
A system-level framework of complex microbe-microbe and host-microbe chemical cross-talk would help elucidate the role of our gut microbiota in health and disease. Here we report a…
Optimizing Event Selection with the Random Grid Search
Pushpalatha C. Bhat, Harrison B. Prosper, Sezen Sekmen +1
The random grid search (RGS) is a simple, but efficient, stochastic algorithm to find optimal cuts that was developed in the context of the search for the top quark at Fermilab in…
Newton Polytopes in Algebraic Combinatorics
Cara Monical, Neriman Tokcan, Alexander Yong
A polynomial has saturated Newton polytope (SNP) if every lattice point of the convex hull of its exponent vectors corresponds to a monomial. We compile instances of SNP in algebra…