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Decoding the JAK-STAT Axis in Colorectal Cancer with AI-HOPE-JAK-STAT: A Conversational Artificial Intelligence Approach to Clinical–Genomic Integration Autor Yang, Ei-Wen, Waldrup, Brigette, Velazquez-Villarreal, Enrique

“…: AI-HOPE-JAK-STAT combines large language models (LLMs), a natural language-to-code engine, and harmonized public CRC datasets from cBioPortal…”
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Introduction to computational causal inference using reproducible Stata, R, and Python code: A tutorial Autor Smith, Matthew J., Mansournia, Mohammad A., Maringe, Camille, Zivich, Paul N., Cole, Stephen R., Leyrat, Clémence, Belot, Aurélien, Rachet, Bernard, Luque‐Fernandez, Miguel A.

“…The main purpose of many medical studies is to estimate the effects of a treatment or exposure on an outcome. However, it is not always possible to randomize…”
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Percolation theory using Python Autor Malthe-Sørenssen, Anders

“… Readers will learn how to generate, analyze, and comprehend data and models, with detailed theoretical discussions complemented by accessible computer codes…”
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LiPydomics: A Python Package for Comprehensive Prediction of Lipid Collision Cross Sections and Retention Times and Analysis of Ion Mobility-Mass Spectrometry-Based Lipidomics Data Autor Ross, Dylan H, Cho, Jang Ho, Zhang, Rutan, Hines, Kelly M, Xu, Libin

“… Existing solutions for these data analysis challenges (i.e., multivariate statistics and lipid identification…”
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Statistics Using Python Autor Campesato, Oswald

“…This book is designed to offer a fast-paced yet thorough introduction to essential statistical concepts using Python code samples, and aims to assist data scientists in their daily endeavors…”
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From code to reliability: Python-powered Paraconsistent Logic for alarm detection in the power gris/ Do codigo a confiabilidade: Logica Paraconsistente impulsionada por Python para a deteccao de alarmes na rede de energia Autor de Oliveira, Joseffe Barroso, Gino, Joao Vitor Santa Rosa, de Lima, Carlos Jose, Filho, Joao Inacio da Silva

“… This application enables the comparison of triggered alarms with the resultant logical states obtained during the analysis…”
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Nestedness for Dummies (NeD): A user friendly web interface for exploratory nestedness analysis Autor Strona, Giovanni, Galli, Paolo, Seveso, Davide, Montano, Simone, Fattorini, Simone

“…Recent theoretical advances in nestedness analysis have led to the introduction of several alternative metrics to overcome most of the problems biasing the use of matrix 'temperature' calculated…”
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Statistical Analyses and Reproducible Research Autor Gentleman, Robert, Temple Lang, Duncan

“…It is important, if not essential, to integrate the computations and code used in data analyses, methodological descriptions, simulations, and so on with the documents that describe and rely…”
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Facilitating the Calculation of the Efficient Score Using Symbolic Computing Autor B. Sibley, Alexander, Li, Zhiguo, Jiang, Yu, Li, Yi-Ju, Chan, Cliburn, Allen, Andrew, Owzar, Kouros

“… In the analysis of data from high-throughput genomic assays, inference on the basis of the score usually enjoys greater stability, considerably higher computational efficiency, and lends itself…”
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Manifold Markov chain Monte Carlo methods for Bayesian inference in diffusion models Autor Graham, Matthew M., Thiery, Alexandre H., Beskos, Alexandros

“…Bayesian inference for nonlinear diffusions, observed at discrete times, is a challenging task that has prompted the development of a number of algorithms,…”
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False Discovery Rate Smoothing Autor Tansey, Wesley, Koyejo, Oluwasanmi, Poldrack, Russell A., Scott, James G.

“…We present false discovery rate (FDR) smoothing, an empirical-Bayes method for exploiting spatial structure in large multiple-testing problems. FDR smoothing…”
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Using GNU Make to Manage the Workflow of Data Analysis Projects Autor Baker, Peter

“…Data analysis projects invariably involve a series of steps such as reading, cleaning, summarizing and plotting data, statistical analysis and reporting…”
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Trimmed Constrained Mixed Effects Models: Formulations and Algorithms Autor Zheng, Peng, Barber, Ryan, Sorensen, Reed J. D., Murray, Christopher J. L., Aravkin, Aleksandr Y.

“…Mixed effects (ME) models inform a vast array of problems in the physical and social sciences, and are pervasive in meta-analysis…”
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Missing Value Imputation in Relational Data Using Variational Inference Autor Fontaine, Simon, Kang, Jian, Zhu, Ji

“…In real-world networks, node attributes are often only partially observed, necessitating imputation to support analysis or enable downstream tasks…”
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Estimating Local Prevalence of Obesity Via Survey Under Cost Constraints: Stratifying ZCTAs in Virginia's Thomas Jefferson Health District Autor Lobo, Benjamin J., Bonds, Denise E., Kafadar, Karen

“… (here, ZIP Code Tabulation Areas, or ZCTAs) prior to conducting the survey for those situations where cost considerations make it infeasible to sample each geographic unit (here, ZCTA) in the region (here, TJHD…”
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A Review of Adversarial Attack and Defense for Classification Methods Autor Li, Yao, Cheng, Minhao, Hsieh, Cho-Jui, Lee, Thomas C. M.

“…Despite the efficiency and scalability of machine learning systems, recent studies have demonstrated that many classification methods, especially Deep Neural…”
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Black Box Variational Bayesian Model Averaging Autor Kejzlar, Vojtech, Bhattacharya, Shrijita, Son, Mookyong, Maiti, Tapabrata

“…For many decades now, Bayesian Model Averaging (BMA) has been a popular framework to systematically account for model uncertainty that arises in situations…”
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Manifold lifting: scaling Markov chain Monte Carlo to the vanishing noise regime Autor Au, Khai Xiang, Graham, Matthew M, Thiery, Alexandre H

“…Standard Markov chain Monte Carlo methods struggle to explore distributions that concentrate in the neighbourhood of low-dimensional submanifolds. This…”
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Unit information prior for adaptive information borrowing from multiple historical datasets Autor Jin, Huaqing, Yin, Guosheng

“… Incorporating historical data in the analysis of the current study is of great importance, as it can help to gain more information, improve efficiency, and provide a more comprehensive evaluation of treatment…”
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Graph analysis and visualization: discovering business opportunity in linked data Autor Brath, Richard, Jonker, David

“… The companion website offers data sets, full code examples in Python, and links to all the tools covered in the book…”
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