EGFR NCBI Gene
Description: epidermal growth factor receptor
Organism: Homo sapiens
Chromosome: 7
Map location: 7p11.2
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IL6 NCBI Gene
Description: interleukin 6
Organism: Homo sapiens
Chromosome: 7
Map location: 7p15.3
View NCBI Gene RecordBRAF NCBI Gene
Description: B-Raf proto-oncogene, serine/threonine kinase
Organism: Homo sapiens
Chromosome: 7
Map location: 7q34
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Description: CD274 molecule
Organism: Homo sapiens
Chromosome: 9
Map location: 9p24.1
View NCBI Gene RecordCYP3A4 NCBI Gene
Description: cytochrome P450 family 3 subfamily A member 4
Organism: Homo sapiens
Chromosome: 7
Map location: 7q22.1
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Changing Data Sources in the Age of Machine Learning for Official Statistics arXiv
Published: June 7, 2023
Authors: Cedric De Boom, Michael Reusens
Data science has become increasingly essential for the production of official statistics, as it enables the automated collection, processing, and analysis of large amounts of data. With such data science practices in place, it enables more timely, more insightful and more flexible reporting. However, the quality and integrity of data-science-driven statistics rely on the accuracy and reliability of the data sources and the machine learning techniques that support them. In particular, changes in data sources are inevitable to occur and pose significant risks that are crucial to address in the context of machine learning for official statistics. This paper gives an overview of the main risks, liabilities, and uncertainties associated with changing data sources in the context of machine learning for official statistics. We provide a checklist of the most prevalent origins and causes of changing data sources; not only on a technical level but also regarding ownership, ethics, regulation, and public perception. Next, we highlight the repercussions of changing data sources on statistical reporting. These include technical effects such as concept drift, bias, availability, validity, accuracy and completeness, but also the neutrality and potential discontinuation of the statistical offering. We offer a few important precautionary measures, such as enhancing robustness in both data sourcing and statistical techniques, and thorough monitoring. In doing so, machine learning-based official statistics can maintain integrity, reliability, consistency, and relevance in policy-making, decision-making, and public discourse.
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DOME: Recommendations for supervised machine learning validation in biology arXiv
Published: June 25, 2020
Authors: Ian Walsh, Dmytro Fishman, Dario Garcia-Gasulla, Tiina Titma, Gianluca Pollastri, The ELIXIR Machine Learning focus group, Jen Harrow, Fotis E. Psomopoulos, Silvio C. E. Tosatto
Modern biology frequently relies on machine learning to provide predictions and improve decision processes. There have been recent calls for more scrutiny on machine learning performance and possible limitations. Here we present a set of community-wide recommendations aiming to help establish standards of supervised machine learning validation in biology. Adopting a structured methods description for machine learning based on data, optimization, model, evaluation (DOME) will aim to help both reviewers and readers to better understand and assess the performance and limitations of a method or outcome. The recommendations are formulated as questions to anyone wishing to pursue implementation of a machine learning algorithm. Answers to these questions can be easily included in the supplementary material of published papers.
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Learning Curves for Decision Making in Supervised Machine Learning: A Survey arXiv
Published: January 28, 2022
Authors: Felix Mohr, Jan N. van Rijn
Learning curves are a concept from social sciences that has been adopted in the context of machine learning to assess the performance of a learning algorithm with respect to a certain resource, e.g., the number of training examples or the number of training iterations. Learning curves have important applications in several machine learning contexts, most notably in data acquisition, early stopping of model training, and model selection. For instance, learning curves can be used to model the performance of the combination of an algorithm and its hyperparameter configuration, providing insights into their potential suitability at an early stage and often expediting the algorithm selection process. Various learning curve models have been proposed to use learning curves for decision making. Some of these models answer the binary decision question of whether a given algorithm at a certain budget will outperform a certain reference performance, whereas more complex models predict the entire learning curve of an algorithm. We contribute a framework that categorises learning curve approaches using three criteria: the decision-making situation they address, the intrinsic learning curve question they answer and the type of resources they use. We survey papers from the literature and classify them into this framework.
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Active learning for data streams: a survey arXiv
Published: February 17, 2023
Authors: Davide Cacciarelli, Murat Kulahci
Online active learning is a paradigm in machine learning that aims to select the most informative data points to label from a data stream. The problem of minimizing the cost associated with collecting labeled observations has gained a lot of attention in recent years, particularly in real-world applications where data is only available in an unlabeled form. Annotating each observation can be time-consuming and costly, making it difficult to obtain large amounts of labeled data. To overcome this issue, many active learning strategies have been proposed in the last decades, aiming to select the most informative observations for labeling in order to improve the performance of machine learning models. These approaches can be broadly divided into two categories: static pool-based and stream-based active learning. Pool-based active learning involves selecting a subset of observations from a closed pool of unlabeled data, and it has been the focus of many surveys and literature reviews. However, the growing availability of data streams has led to an increase in the number of approaches that focus on online active learning, which involves continuously selecting and labeling observations as they arrive in a stream. This work aims to provide an overview of the most recently proposed approaches for selecting the most informative observations from data streams in real time. We review the various techniques that have been proposed and discuss their strengths and limitations, as well as the challenges and opportunities that exist in this area of research.
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Physics-Inspired Interpretability Of Machine Learning Models arXiv
Published: April 5, 2023
Authors: Maximilian P Niroomand, David J Wales
The ability to explain decisions made by machine learning models remains one of the most significant hurdles towards widespread adoption of AI in highly sensitive areas such as medicine, cybersecurity or autonomous driving. Great interest exists in understanding which features of the input data prompt model decision making. In this contribution, we propose a novel approach to identify relevant features of the input data, inspired by methods from the energy landscapes field, developed in the physical sciences. By identifying conserved weights within groups of minima of the loss landscapes, we can identify the drivers of model decision making. Analogues to this idea exist in the molecular sciences, where coordinate invariants or order parameters are employed to identify critical features of a molecule. However, no such approach exists for machine learning loss landscapes. We will demonstrate the applicability of energy landscape methods to machine learning models and give examples, both synthetic and from the real world, for how these methods can help to make models more interpretable.
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