18 papers · ranked by Valyu relevance
Ravi, Prerna, Lee, Dong Won + 12 more
Understanding how ideas develop and flow in small-group conversations is critical for analyzing collaborative learning. A key structural feature of these interactions is threading—the way discourse talk naturally organizes into interwoven topical strands that evolve over time. While threading has been widely studied in…
Erik D. Demaine, Yael Kirkpatrick, Rebecca Lin
Inspired by artistic practices such as beadwork and himmeli, we study the problem of threading a single string through a set of tubes, so that pulling the string forms a desired graph. More precisely, given a connected graph (where edges represent tubes and vertices represent junctions where they meet), we give a…
Erik D. Demaine, Yael Kirkpatrick, Rebecca Lin
How should we thread a single string through a set of tubes so that pulling the string taut selfassembles the tubes into a desired graph? While prior work [ITCS 2024] solves this problem with the goal of minimizing the length of string, we study here the objective of minimizing the total turn cost. The frictional force…
Andrew C. Payne, Michael Andregg, Kent Kemmish, Mark Hamalainen + 11 more
'Charlotte Bowell' 'Andrew Bleloch' 'Nathan Klejwa' 'Wolfgang Lehrach' 'Ken Schatz' 'Heather Stark' 'Adam Marblestone' 'George Church' 'Christopher S. Own' 'William Andregg' 'Jerome Mathe'] We present “molecular threading”, a surface independent tip-based method for stretching and depositing single and double-stranded…
Zahra Ahmadian Dehaghani
environmental crowding Authors: ['Zahra Ahmadian Dehaghani'] This study investigates the probability of threading in star catenanes under good solvent conditions using molecular dynamics simulations, emphasizing the influence of ring rigidity. Threading in these systems arises from the interplay between the intrinsic…
Sutanu Bhattacharya, Rahmatullah Roche, Debswapna Bhattacharya
Threading a query protein sequence onto a library of weakly homologous structural templates remains challenging, even when sequence-based predicted contact or distance information is used. Contact- or distance-assisted threading methods utilize only the residue pairs predicted to be spatially close for template…
Pawel Gniewek, Andrzej Kolinski, Andrzej Kloczkowski, Dominik Gront
Background The comparative modeling approach to protein structure prediction inherently relies on a template structure. Before building a model such a template protein has to be found and aligned with the query sequence. Any error made on this stage may dramatically affects the quality of result. There is a need…
Weikang Gong, Aysam Guerler, Chengxin Zhang, Elisa Warner + 2 more
Genome-wide protein-protein interaction (PPI) determination remains a significant unsolved problem in structural biology. The difficulty is twofold since high-throughput experiments (HTEs) have often a high false-positive rate in assigning PPIs, and PPI quaternary structures are more difficult to solve than tertiary…
J.A. Bergstra
| 1 | Introduction, PMTh | | 2 | | --- | --- | --- | --- | | | 1.1 | Concurrency, multi-tasking, multi-threading, arbitrary interleav | | | | | ing, and strategic interleaving | 3 | | | 1.2 | Multi-threading in psychology versus multi-threading in computing | 4 | | | 1.3 | Designing a story on PMTh | 6 | | | 1.4 | A…
Ben Langmead, Christopher Wilks, Valentin Antonescu, Rone Charles
General-purpose processors can now contain many dozens of processor cores and support hundreds of simultaneous threads of execution. To make best use of these threads, genomics software must contend with new and subtle computer architecture issues. We discuss some of these and propose methods for improving thread…
Ahsan Sanaullah, Degui Zhi, Shaojie Zhang
The Li & Stephens (LS) hidden Markov model (HMM) models the process of reconstructing a haplotype as a mosaic copy of haplotypes in a reference panel (haplotype threading). For small panels the probabilistic parameterization of LS enables modeling the uncertainties of such mosaics, and has been the foundational model…
Chia-Hsien Hsieh, Yi-Xin Liu, Pei-Yu Chen, Hsu-Wei Fang + 2 more
'Andreea-Teodora Iacob' 'Lenuta Profire'] Facial lifting with polydioxanone barbed threads has been widely used in aesthetic treatment for years. However, gravity resists the thread and continuously pulls the face downward. This study aims to determine methods to lift the skin more efficiently with longer longevity.…
Árni Freyr Gunnarsson, Jiazheng Zhu, Brian C. Zhang, Zoi Tsangalidou + 2 more
The ancestral recombination graph (ARG) is a graph-like structure that encodes a detailed genealogical history of a set of individuals along the genome. ARGs that are accurately reconstructed from genomic data have several downstream applications, but inference from data sets comprising millions of samples and variants…
Pawel Zajac, Christine Öberg, Afshin Ahmadian, M. Thomas P. Gilbert
The majority of studies employing short tandem repeats (STRs) require investigation of several of these genetic markers. As such, we demonstrate the feasibility of the trinucleotide threading (TnT) approach for scalable analysis of STRs. The TnT method represents a parallel amplification alternative that addresses the…
Xiaohan Dou, Chengqi Xue, Gengpei Zhang, Zhihao Jiang + 1 more
In the realm of industrial inspection, the precise assessment of internal thread quality is crucial for ensuring mechanical integrity and safety. However, challenges such as limited internal space, inadequate lighting, and complex geometry significantly hinder high-precision inspection. In this study, we propose an…
Gabriel da Hora, Myongin Oh, Marcus Mifflin, Lori Digal + 2 more
Lasso peptides are a class of natural products characterized by a threaded structure. Given their small size and stability, chemical synthesis would offer tremendous potential for the development of novel therapeutics. However, the accessibility of the pre-folded lasso architecture has limited this advance. To better…
Lisa Thomson, Daniel McDowall, Libby Marshall, Olivia Marshall + 8 more
Hierarchical self-assembly is an effective means of preparing useful materials. However, control over assembly across length scales is a difficult challenge, often confounded by the perceived need to re-design the molecular building blocks when new material properties are needed. Here, we show that we can treat a…
Authors not listed
Self-organizing tissues, such as organoids, offer transformative potential beyond healthcare by enabling the sustainable production of advanced materials. Resource scarcity and global warming drive the need for innovative fabrication solutions. This prospective review explores developmental biology as a manufacturing…