Related papers: A small PAM optimises target recognition in the CR…
AMP activated protein kinase (AMPK) is a critical energy sensor, regulating signaling networks involved in pathology including metabolic diseases and cancer. This increasingly recognized role of AMPK has prompted tremendous research efforts…
The Predictive Associative Memory (PAM) framework posits that useful relationships often connect items that co-occur in shared contexts rather than items that appear similar in embedding space. A contrastive MLP trained on co-occurrence…
DNA sequence classification is a fundamental task in computational biology with vast implications for applications such as disease prevention and drug design. Therefore, fast high-quality sequence classifiers are significantly important.…
Mismatch repair is a critical step in DNA replication that occurs after base selection and proofreading, significantly increasing fidelity. However, the mechanism of mismatch recognition has not been established for any repair enzyme.…
Immune cells recognize and discriminate antigens through immunological synapses - dynamic intercellular junctions exhibiting highly organized receptor-ligand patterns. While much work has focused on molecular kinetics and passive mechanisms…
With the introduction of cyber-physical genome sequencing and editing technologies, such as CRISPR, researchers can more easily access tools to investigate and create remedies for a variety of topics in genetics and health science (e.g.…
This article considers the impact of different thresholding methods to the Nearest Shrunken Centroid algorithm, which is popularly referred as the Prediction Analysis of Microarrays (PAM) for high-dimensional classification. PAM uses soft…
Some prokaryotes possess CRISPR-Cas systems that provide adaptive immunity to viruses guided by DNA segments called spacers acquired from invading phage. However, the patchy incidence and limited memory breadth of CRISPR-Cas systems suggest…
Intrinsically Disordered Proteins (IDPs) perform a broad range of biological functions. Their relevance has motivated intense research activity seeking to characterize their sequence/structure/function relationships. However, the…
The detection of anomalies in unknown environments is a problem that has been approached from different perspectives with variable results. Artificial Immune Systems (AIS) present particularly advantageous characteristics for the detection…
Breast cancer is a highly heterogeneous disease with diverse molecular profiles. The PAM50 gene signature is widely recognized as a standard for classifying breast cancer into intrinsic subtypes, enabling more personalized treatment…
How DNA-binding proteins locate specific genomic targets remains a central challenge in molecular biology. Traditional protein-centric approaches, which rely on wet-lab experiments and visualization techniques, often lack genome-wide…
The fundamental sensing limit of pinching-antenna systems (PASS) is studied from a Bayesian Cram\'er-Rao bound (BCRB) perspective. Compared to conventional CRB, BCRB is independent of the exact values of sensing parameters and is not…
Immune cells learn about their antigenic targets using tactile sense: during recognition, a highly organized yet dynamic motif, named immunological synapse, forms between immune cells and antigen-presenting cells (APCs). Via synapses,…
The structure of DNA Binding Proteins enables a strong interaction with their specific target site on DNA. However, recent single molecule experiment reported that proteins can diffuse on DNA. This suggests that the interactions between…
Machine learning methods are used today for most recognition problems. Convolutional Neural Networks (CNN) have time and again proved successful for many image processing tasks primarily for their architecture. In this paper we propose to…
Molecular chaperones are machines that consume copious amount of ATP to drive misfolded proteins or RNA to fold into functionally competent native states. Because the folding landscapes of biomolecules with complex native state topology are…
Simultaneously optimizing multiple, frequently conflicting, molecular properties is a key bottleneck in the development of novel therapeutics. Although a promising approach, the efficacy of multi-task learning is often compromised by…
We investigate a novel integrated sensing and communication (ISAC) system supported by pinching antennas (PAs), which can be dynamically activated along a dielectric waveguide to collect spatially diverse observations. This capability…
External information propagates in the cell mainly through signaling cascades and transcriptional activation, allowing it to react to a wide spectrum of environmental changes. High throughput experiments identify numerous molecular…