13 papers · ranked by Valyu relevance
Mohammed Sahli, Tetsuo Shibuya
Background Genome assembly is considered to be a challenging problem in computational biology, and has been studied extensively by many researchers. It is extremely difficult to build a general assembler that is able to reconstruct the original sequence instead of many contigs. However, we believe that creating…
Chengxi Ye, Zhanshan Sam Ma, Charles H Cannon, Mihai Pop + 1 more
'Douglas W Yu'] Background The very large memory requirements for the construction of assembly graphs for de novo genome assembly limit current algorithms to super-computing environments. Methods In this paper, we demonstrate that constructing a sparse assembly graph which stores only a small fraction of the observed…
Zeinab Taghavi
Background Acquiring genomes at single-cell resolution has many applications such as in the study of microbiota. However, deep sequencing and assembly of all of millions of cells in a sample is prohibitively costly. A property that can come to rescue is that deep sequencing of every cell should not be necessary to…
Abhishek Sharma, Dániel Czégel, Michael Lachmann, Christopher P. Kempes + 2 more
'Christopher P. Kempes' 'Sara I. Walker' 'Leroy Cronin'] Scientists have grappled with reconciling biological evolution1,2 with the immutable laws of the Universe defined by physics. These laws underpin life’s origin, evolution and the development of human culture and technology, yet they do not predict the emergence…
Tyler G. Moore, Max H. Garzon, Russell J. Deaton, Ming Dao
Inspired by biological systems, self-assembly aims to construct complex structures. It functions through piece-wise, local interactions among component parts and has the potential to produce novel materials and devices at the nanoscale. Algorithmic self-assembly models the product of self-assembly as the output of some…
Felipe A. Louza, Guilherme P. Telles, Steve Hoffmann, Cristina D. A. Ciferri
'Cristina D. A. Ciferri'] Background Suffix arrays, augmented by additional data structures, allow solving efficiently many string processing problems. The external memory construction of the generalized suffix array for a string collection is a fundamental task when the size of the input collection or the data…
Caroline Rossi-Gendron, Farah El Fakih, Koyomi Nakazawa, Léa Chocron + 5 more
Self-assembly is both an advantageously spontaneous process to organize molecular or colloidal entities into synthetic functional superstructures and a key-feature of how life builds its components. However, compared to their living counterparts, synthetic materials made by self-assembly usually lack some of the…
Authors not listed
Synthetic DNA strands are programmable and biocompatible building blocks that can be combined through hybridization to form user-defined nanostructures, but their assembly traditionally requires cell-incompatible conditions, imposing a lengthy ex situ fabrication step before any application with living matter. Here we…
Nicholas Tjahjono, Evgeni Penev, Boris Yakobson
Programmable self-assembly provides a promising avenue to improve upon traditional synthesis and create multi-component materials with emergent properties and arbitrary nanoscale complexity. However, its most successful realizations utilizing DNA often use complicated arduous procedures that result in low yields. Here…
Yuan-Ping Pang
Cram’s supramolecular capsule Octacid4 can irreversibly and noncovalently self-assemble with small- molecule guests at room temperature, but how they self-assemble and what accelerates their assembly are open questions that hold the key to developing noncovalent irreversible complexes. This article reports 72 distinct…
Authors not listed
Artificial biomolecular nanotubes are a promising approach to build materials mimicking the capacity of the cellular cytoskeleton to grow and self-organize dynamically. Nucleic acid nanotechnology has demonstrated a variety of self-assembling nanotubes with programmable, robust features, and morphological similarities…
Rituraj Borah, Karthick Raj AG, Antony Charles Minja, Sammy Verbruggen
The colloidal synthesis of functional nanoparticles have gained tremendous scientific attention in the last decades. In parallel to these advancements, another rapidly growing area is the self-assembly of these colloidal nanoparticles into greater periodic arrangements. Firstly, the organization of nanoparticles into…
Andrew Tarzia, Wentao Shan, Victor Posligua, Cameron Cox + 5 more
Heteroleptic (mixed-ligand) coordination cages are of interest as host systems with more structurally and functionally complex cavities than homoleptic architectures. The design of heteroleptic cages, however, is far from trivial. In this work, we experimentally probed the self-assembly of Pd(II) ions with binary…