医学 AI

Knowledge-Driven Mechanistic Enrichment of the Preeclampsia Ignorome

Tiffany J. Callahan, Adrianne L. Stefanski, Jin-Dong Kim, William A. Baumgartner, Jordan M. Wyrwa, Lawrence E. Hunter

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments Preprint of an article submitted for consideration in Pacific Symposium on Biocomputing ©2022 copyright World Scientific Publishing Company https://psb.stanford.edu/

Distributed online estimation of biophysical neural networks

Thiago B. Burghi, Timothy O'Leary, Rodolphe Sepulchre

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments Submitted to Conference on Decision and Control (CDC) 2022

Clinicopathological correlation of p40/TTF1 co-expression in NSCLC and review of related literature

Lian Yang, Ming Xiao, Xian Li, Ya-lan Wang

专题命中 生物医学文本 ：CT(abstract)；分类 q-bio

Current and perspective sensing methods for monkeypox virus: a reemerging zoonosis in its infancy

Ijaz Gul, Changyue Liu, Yuan Xi, Zhicheng Du, Shiyao Zhai, Zhengyang Lei, Chen Qun, Muhammad Akmal Raheem, Qian He, Zhang Haihui, Canyang Zhang, Runming Wang, Sanyang Han, Du Ke, Peiwu Qin

专题命中 生物医学文本 ：diagnosis(abstract)；分类 q-bio

Comments 36 pages, 5 figures, 1 table

Warp and Weft Wiring method for rapid, modifiable, self-aligned, and bonding-free fabrication of multi electrodes microfluidic sensors

Ali Olyanasab, Zahra Meskar, Mohsen Annabestani, Ali Mousavi Shaegh, Mehdi Fardmanesh

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Building a Relation Extraction Baseline for Gene-Disease Associations: A Reproducibility Study

Laura Menotti

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Data integration in systems genetics and aging research

Alexis Rapin, Maroun Bou Sleiman, Johan Auwerx

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 7 pages, 3 figures, Proceedings of the Swiss Research Data Day 2020, Oct. 22 2020. For full conference proceedings see http://www.ressi.ch/sites/default/files/No_special_DLCM.pdf

Journal ref Revue électronique suisse de science de l'information (RESSI) DLCM (Feb. 15 2022) 75-84

Open Problems in Mathematical Biology

Sean T. Vittadello, Michael P. H. Stumpf

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 31 pages,2 figures, 115 references

Guidelines for reporting cell types: the MIRACL standard

Tiago Lubiana, Paola Roncaglia, Christopher J. Mungall, Ellen M. Quardokus, Joshua D. Fortriede, David Osumi-Sutherland, Alexander D. Diehl

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 8 pages, 1 figure, 1 table

Biofilm Growth Under Elastic Confinement

George T. Fortune, Nuno M. Oliveira, Raymond E. Goldstein

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 5 pages, 3 figures plus Supplementary Material

ProTranslator: zero-shot protein function prediction using textual description

Hanwen Xu, Sheng Wang

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

graph-GPA 2.0: A Graphical Model for Multi-disease Analysis of GWAS Results with Integration of Functional Annotation Data

Qiaolan Deng, Jin Hyun Nam, Ayse Selen Yilmaz, Won Chang, Maciej Pietrzak, Lang Li, Hang J. Kim, Dongjun Chung

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Robust Differential Abundance Test in Compositional Data

Shulei Wang

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Packaging, containerization, and virtualization of computational omics methods: Advances, challenges, and opportunities

Mohammed Alser, Sharon Waymost, Ram Ayyala, Brendan Lawlor, Richard J. Abdill, Neha Rajkumar, Nathan LaPierre, Jaqueline Brito, Andre M. Ribeiro-dos-Santos, Can Firtina, Nour Almadhoun, Varuni Sarwal, Eleazar Eskin, Qiyang Hu, Derek Strong, Byoung-Do, Kim, Malak S. Abedalthagafi, Onur Mutlu, Serghei Mangul

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

The Cell Physiome: What do we need in a computational physiology framework for predicting single cell biology?

Vijay Rajagopal, Senthil Arumugam, Peter Hunter, Afshin Khadangi, Joshua Chung, Michael Pan

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments Minor text edits to fix minor grammatical errors and figure reference

Portability for GPU-accelerated molecular docking applications for cloud and HPC: can portable compiler directives provide performance across all platforms?

Mathialakan Thavappiragasam, Wael Elwasif, Ada Sedova

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Using Genetic Programming to Predict and Optimize Protein Function

Iliya Miralavy, Alexander Bricco, Assaf Gilad, Wolfgang Banzhaf

专题命中 生物医学文本 ：MRI(abstract)；分类 q-bio

Comments 23 pages, 8 figures and 4 tables

Enrichment of gut microbiome strains for cultivation-free genome sequencing using droplet microfluidics

Anna Pryszlak, Tobias Wenzel, Kiley West Seitz, Falk Hildebrand, Ece Kartal, Marco Raffaele Cosenza, Vladimir Benes, Peer Bork, Christoph Merten

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 18 pages incl. references, 4 main figures and one supplementary figure

Journal ref Cell Reports Methods 12/2021

On the influence of several factors on pathway enrichment analysis

Sarah Mubeen, Alpha Tom Kodamullil, Martin Hofmann-Apitius, Daniel Domingo-Fernández

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Depth Normalization of Small RNA Sequencing: Using Data and Biology to Select a Suitable Method

Yannick Düren, Johannes Lederer, Li-Xuan Qin

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 16 pages, 6 figures

A Cross Entropy test allows quantitative statistical comparison of t-SNE and UMAP representations

Carlos P. Roca1, Oliver T. Burton, Julika Neumann, Samar Tareen, Carly E. Whyte, Stéphanie Humblet-Baron, Adrian Liston

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 26 pages, 5 figures

Knowledge Graph-based Neurodegenerative Diseases and Diet Relationship Discovery

Yi Nian, Jingcheng Du, Larry Bu, Fang Li, Xinyue Hu, Yuji Zhang, Cui Tao

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments Accepted by CIBB 2021 (The 17th International Conference on Computational Intelligence Methods for Bioinformatics and Biostatistics)

RZiMM-scRNA: A regularized zero-inflated mixture model framework for single-cell RNA-seq data

Xinlei Mi, William Bekerman, Peter A. Sims, Peter D. Canoll, Jianhua Hu

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 22 pages, 8 figures

Towards a Governance Framework for Brain Data

Marcello Ienca, Joseph J. Fins, Ralf J. Jox, Fabrice Jotterand, Silja Voeneky, Roberto Andorno, Tonio Ball, Claude Castelluccia, Ricardo Chavarriaga, Hervé Chneiweiss, Agata Ferretti, Orsolya Friedrich, Samia Hurst, Grischa Merkel, Fruzsina Molnar-Gabor, Jean-Marc Rickli, James Scheibner, Effy Vayena, Rafael Yuste, Philipp Kellmeyer

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Julia for Biologists

Elisabeth Roesch, Joe G. Greener, Adam L. MacLean, Huda Nassar, Christopher Rackauckas, Timothy E. Holy, Michael P. H. Stumpf

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 17 pages, 6 figures

Biological applications of ferroelectric materials

Alfonso Blázquez-Castro, Angel García-Cabañes, Mercedes Carrascosa

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 39 pages, 10 figures, 3 tables, 127 references, publication year 2018

Journal ref Applied Physics Reviews, volumen 5, pages 041101, 2018

Fluorescent redox-dependent labeling of lipid droplets in cultured cells by reduced phenazine methosulfate

Juan C. Stockert, María C. Carou, Adriana G. Casas, María C. García Vior, Sergio D. Ezquerra Riega, María M. Blanco, Jesús Espada, Alfonso Blázquez-Castro, Richard W. Horobin, Daniel M. Lombardo

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 23 pages, 7 figures, 1 table, publication year 2020

Journal ref Heliyon, volume 6, pages e04182, 2020

Machine Learning Implicit Solvation for Molecular Dynamics

Yaoyi Chen, Andreas Krämer, Nicholas E. Charron, Brooke E. Husic, Cecilia Clementi, Frank Noé

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 16 pages, 6 figures

Journal ref J. Chem. Phys. 155, 084101 (2021)

Gene-based and semantic structure of the Gene Ontology as a complex network

Salvatore Miccichè

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments 10 pages, 5 figures, 2 Tables

Journal ref Physica A, 458, 313-328, (2016)

Active transport in complex environments

Alejandro Martínez-Calvo, Carolina Trenado-Yuste, Sujit S. Datta

专题命中 生物医学文本 ：biomedical(abstract)；分类 q-bio

Comments Preprint of a chapter in the book \textit{Out-of-Equilibrium Soft Matter: Active Fluids}, to be published by the Royal Society of Chemistry; revised version has added references and corrected typos