Christopher Johnson Markiewicz

Building an open infrastructure for molecular neuroimaging: standards and tools from the OpenNeuroPET initiative

The paper describes the OpenNeuroPET initiative, which develops standards and open-source tools to standardize and share PET neuroimaging data, enhancing reproducibility and collaboration.

EMG-BIDS: an extension to the Brain Imaging Data Structure for electromyography

EMG-BIDS standardizes EMG data organization, enabling FAIR data sharing and supporting machine learning applications.

Eye-Tracking-BIDS: the Brain Imaging Data Structure extended to gaze position and pupil data

This paper extends the BIDS standard to include eye-tracking data and metadata, improving organization and transparency for gaze position and pupil recordings.

fMRIPrep Lifespan: Extending A Robust Pipeline for Functional MRI Preprocessing to Developmental Neuroimaging

The paper extends fMRIPrep to handle MRI data from infancy to old age, demonstrating high-quality preprocessing across a wide age range.

Continuous Evaluation of Denoising Strategies in Resting-State fMRI Connectivity Using fMRIPrep and Nilearn

This paper evaluates denoising strategies in resting-state fMRI using fMRIPrep and Nilearn, finding that scrubbing combined with global signal regression is effective but may disrupt continuous sampling.

TemplateFlow: FAIR-sharing of multi-scale, multi-species brain models

TemplateFlow provides a FAIR framework for sharing and managing multi-scale, multi-species brain models to improve reproducibility in neuroimaging.

Neuroscout, a unified platform for generalizable and reproducible fMRI research

Neuroscout provides an automated platform for analyzing naturalistic fMRI data, enabling reproducible and generalizable research through machine learning and open tools.

PET-BIDS, an extension to the brain imaging data structure for positron emission tomography

The paper introduces PET-BIDS, an extension of the BIDS standard for PET data, and provides curated datasets and tools for its use.

OpenNeuro: An open resource for sharing of neuroimaging data

OpenNeuro is an open archive for sharing brain imaging data following FAIR principles, hosting over 600 datasets from 20,000 participants across species and modalities, with over 150 publications citing its data.

High-sensitivity detection of facial features on MRI brain scans with a convolutional network

The paper introduces a convolutional neural network to detect defaced facial features in MRI brain scans, achieving high accuracy and sensitivity using data augmentation.

Analysis of task-based functional MRI data preprocessed with fMRIPrep

This paper introduces fMRIPrep, a tool for preprocessing task-based fMRI data, and demonstrates its integration into a workflow for statistical analysis.

FMRIPrep: a robust preprocessing pipeline for functional MRI

fMRIPrep, a BIDS-driven, self-adapting fMRI preprocessing pipeline, earned above-acceptable expert quality ratings on 50 of 54 OpenfMRI datasets and introduced less smoothing than FSL feat.