Methods Neuropreprints: W21, 2020

Image: High-Resolution Metabolic Mapping of the Cerebellum Using a Reduced Field of View (Zoomed) Magnetic Resonance Spectroscopic Imaging
uzay emir, et al.

Models

Learning receptive field properties of complex cells in V1
Yanbo Lian, Ali Almasi, David B. Grayden, Tatiana Kameneva, Anthony N. Burkitt, Hamish Meffin

Understanding visual attention with RAGNAROC: A Reflexive Attention Gradient through Neural AttRactOr Competition (R)
Brad Wyble, Chloe Callahan-Flintoft, Hui Chen, Toma Marinov, Aakash Sarkar, Howard Bowman

Local propagation dynamics of MEG interictal spikes: source reconstruction with traveling-wave priors
Aleksandra Kuznetsova, Mikhail Lebedev, Alexei Ossadtchi

Nonlinear convergence preserves information (R)
Gabrielle J Gutierrez, Fred Rieke, Eric Shea-Brown

Graph Properties of the Adult Drosophila Central Brain
Louis K Scheffer

A Purkinje cell model that simulates complex spikes
Amelia Burroughs, Nadia L Cerminara, Richard Apps, Conor J Houghton

The developing Human Connectome Project (dHCP) automated resting-state functional processing framework for newborn infants. (R)
Sean Patrick Fitzgibbon, Samuel J Harrison, Mark Jenkinson, Luke Baxter, Emma Claire Robinson, Matteo Bastiani, Jelena Bozek, Vyacheslav Karolis, Lucilio Cordero Grande, Anthony N Price, Emer Hughes, Antonios Makropoulos, Jonathan Passerat-Palmbach, Andreas Schuh, Jianliang Gao, Seyedeh-Rezvan Farahibozorg, Jonathan O’Muircheartaigh, Judit Ciarrusta, Camilla O’Keeffe, Jakki Brandon, Tomoki Arichi, Daniel Rueckert, Joseph V Hajnal, A David Edwards, Stephen M Smith, Eugene Duff, Jesper Andersson

Models of heterogeneous dopamine signaling in an insect learning and memory center (R)
Linnie Jiang, Ashok Litwin-Kumar

Complexity of resting brain dynamics shaped by multiscale structural constraints (R)
Mengsen Zhang, Manish Saggar

Time course of alterations in adult spinal motoneuron properties in the SOD1(G93A) mouse model of ALS
Seoan Huh, C J Heckman, Marin Manuel

Development and optimization of a high-throughput 3D rat Purkinje neuron culture
Ida Margrethe Uggerud, Torbjorn Krakenes, Hirokazu Hirai, Christian Alexander Vedeler, Manja Schubert

The bounded rationality of probability distortion (R)
Hang Zhang, Xiangjuan Ren, Laurence T. Maloney

New methods and techniques

Label-free optical detection of bioelectric potentials using electrochromic thin films
Felix S. Alfonso, Yuecheng Zhou, Erica Liu, Allister F. McGuire, Yang Yang, Husniye Kantarci, Dong Li, Eric Copenhaver, J. Bradley Zuchero, Holger Muller, Bianxiao Cui

BrainGNN: Interpretable Brain Graph Neural Network for fMRI Analysis (R)
Xiaoxiao Li, James Duncan, Yuan Zhou, Siyuan Gao, Nicha Dvornek, Muhan Zhang, Shi Gu, Dustin Scheinost, Lawrence Staib, Pamela Ventola, James Duncan

Vasculature-staining with lipophilic dyes in tissue-cleared brains assessed by deep learning
Beatriche L. E. Henriksen, Kristian H. R. Jensen, Rune W Berg

Optogenetic therapy: High spatiotemporal resolution and pattern recognition compatible with vision restoration in non-human primates
Gregory Gauvain, Himanshu Akolkar, Antoine Chaffiol, Fabrice Arcizet, Mina Khoei, Melissa Desrosiers, Celine Jaillard, Romain Caplette, Olivier Marre, Stephane Bertin, Claire-Maelle Fovet, Joanna Demilly, Valerie Forster, Elena Brazhnikova, Philippe Hantraye, Pierre Pouget, Anne Douar, Didier Pruneau, Joel Chavas, Jose-Alain Sahel, Deniz Dalkara, Jens Duebel, Ryad Benosman, Serge Picaud

NeuroRA: A Python Toolbox of Representational Analysis from Multi-modal Neural Data (R)
Zitong Lu, Yixuan Ku

Modern Machine Learning: Partition & Vote (R)
Carey E Priebe, Joshua Vogelstein, Florian Engert, Christopher M White

Detection of cerebral tauopathy in P301L mice using high-resolution large-field multifocal illumination fluorescence microscopy
Ruiqing Ni, Zhenyue Chen, JUAN A. GEREZ, Gloria Shi, Quanyu Zhou, Roland Riek, Peter R. Nilsson, Daniel Razansky, Jan Klohs

A Connectivity-based Psychometric Prediction Framework for Brain-behavior Relationship Studies (R)
Jianxiao Wu, Simon B. Eickhoff, Felix Hoffstaedter, Kaustubh R. Patil, Holger Schwender, B.T. Thomas Yeo, Sarah Genon

Topographic organization of the human subcortex unveiled with functional connectivity gradients (R)
Ye Tian, Daniel S Margulies, Michael Breakspear, Andrew Zalesky

Whole-Brain High-Resolution Metabolite Mapping with 3D Compressed-Sensing-SENSE-LowRank 1H FID-MRSI
Antoine Klauser, Paul Klauser, Frédéric Grouiller, Sebastien Courvoisier, Francois Lazeyras

Alterations in resting-state network dynamics along the Alzheimer’s disease continuum: a combined MEG-PET/MR approach
D. Puttaert, N. Coquelet, V. Wens, P. Peigneux, P. Fery, A. Rovai, N. Trotta, J-C. Bier, S. Goldman, X. De Tiège

Practical gradient non-linearity correction of multi-site diffusion weighted MRI with empirical field maps
Colin B Hansen, Baxter P Rogers, Kurt G Schilling, Vishwesh Nath, Justin A Blaber, Okan Irfanoglu, Alan Barnett, Carlo Pierpaoli, Adam W Anderson, Bennett A Landman

NeuroPycon: An open-source Python toolbox for fast multi-modal and reproducible brain connectivity pipelines (R)
David Meunier, Annalisa Pascarella, Dmitrii Altukhov, Mainak Jas, Etienne Combrisson, Tarek Lajnef, Daphne Bertrand-Dubois, Vanessa Hadid, Golnoush Alamian, Jordan Alves, Fanny Barlaam, Anne-Lise Saive, Arthur Dehgan, Karim Jerbi

Human es-fMRI Resource: Concurrent deep-brain stimulation and whole-brain functional MRI (R)
William Hedley Thompson, Remya Nair, Hiroyuki Oya, Oscar Esteban, James M Shine, Christopher Petkov, Russell A Poldrack, Matthew Howard, Ralph Adolphs

Global quantitative analysis of the human brain proteome and phosphoproteome in Alzheimer’s disease
Lingyan Ping, Sean R Kundinger, Duc M Duong, Luming Yin, Marla Gearing, James J Lah, Allan I Levey, Nicholas T Seyfried

Neuronal and glial 3D chromatin architecture illustrates cellular etiology of brain disorders (R)
Benxia Hu, Hyejung Won, Won Mah, Royce Park, Bibi Kassim, Keeley Spiess, Alexey Kozlenkov, Cheynna A Crowley, Sirisha Pochareddy, Yun Li, Stella Dracheva, Nenad Sestan, Schahram Akbarian, Daniel Geschwind

Transcriptional and epigenetic characterization of early striosomes identifies Foxf2 and Olig2 as factors required for development of striatal compartmentation and neuronal phenotypic differentiation
Maria-Daniela Cirnaru, Sicheng Song, Kizito-Tshitoko Tshilenge, Chuhyon Corwin, Justyna Mleczko, Carlos Galicia Aguirre, Houda Benlhabib, Jaroslav Bendl, John Fullard, Pasha Apontes, Jordi Creus Muncunill, Peter Carlsson, Sean D Mooney, Panos Roussos, Lisa Ellerby, Michelle E Ehrlich

Focused ultrasound excites neurons via mechanosensitive calcium accumulation and ion channel amplification
Sangjin Yoo, David R. Mittelstein, Robert C. Hurt, Jerome J. Lacroix, Mikhail G. Shapiro

Neurons need no adaptation to optimally code arbitrarily complex stimuli
Oren Forkosh

Real-time detection of bursts in neuronal cultures using a Neuromorphic Auditory Sensor and Spiking Neural Networks
Juan Pedro Dominguez-Morales, Stefano Buccelli, Daniel Gutierrez-Galan, Ilaria Colombi, Angel Jimenez-Fernandez, Michela Chiappalone

Harnessing Tactile Waves to Measure Skin-to-Skin Interactions
Louise P Kirsch, Xavier E Job, Malika Auvray, Vincent Hayward

Synaptic polarity and sign-balance prediction using gene expression data in the Caenorhabditis elegans chemical synapse neuronal connectome network
Bánk G. Fenyves, Gábor S. Szilágyi, Vassy Zsolt, Sőti Csaba, Peter Csermely

Detection of Transient Neurotransmitter Response Using Personalized Neural Networks (R)
Ivan S. Klyuzhin, Connor W. J. Bevington, Ju-Chieh (Kevin) Cheng, Vesna Sossi

Ultra-high field (10.5 T) resting state fMRI in the macaque
Essa Yacoub, Mark D Grier, Edward J Auerbach, Russell L Lagore, Noam Harel, Kamil Ugurbil, Gregor Adriany, Anna Zilverstand, Benjamin Y Hayden, Sarah R Heilbronner, Jan Zimmermann

Focal cortical surface cooling is a novel and safe method for intraoperative functional brain mapping
Kenji Ibayashi, Araceli R. Cardenas, Hiroyuki Oya, Hiroto Kawasaki, Christopher K. Kovach, Matthew A. Howard III, Michael A. Long, Jeremy D.W. Greenlee

Arterial blood contrast (ABC) enabled by magnetization transfer (MT): a novel MRI technique for enhancing the measurement of brain activation changes (R)
Jenni Schulz, Zahra Fazal, Riccardo Metere, Jose Marques, David Norris

Mathematical framework for a place code in the auditory system
Alex D Reyes

Neural Stimulation in vitro and in vivo by Photoacoustic Nanotransducers
Yimin Huang, Ying Jiang, Xuyi Luo, Jiayingzi Wu, Haonan Zong, Linli Shi, Ran Cheng, Shan Jiang, Xiaoting Jia, Jianguo Mei, Hengye Man, Ji-Xin Cheng, Chen Yang

Validation

Objective Extraction of Evoked Event-related Oscillations from Time-frequency Representation of Event-related Potentials
Guanghui Zhang, Tapani Ristaniemi, Fengyu Cong

Predictive regression modeling with MEG/EEG: from source power to signals and cognitive states (R)
David Sabbagh, Pierre Ablin, Gael Varoquaux, Alexandre Gramfort, Denis A Engemann

Neural attention filters do not predict behavioral success in a large cohort of aging listeners
Sarah Tune, Mohsen Alavash, Lorenz Fiedler, Jonas Obleser

Proper names from story recall are associated with beta-amyloid in cognitively unimpaired adults at risk for Alzheimer’s disease
Kimberly D Mueller, Rebecca Koscik, LianLian Du, Davide Bruno, Erin M Jonaitis, Audra Z Koscik, Bradley Christian, Tobey J Betthauser, Nathaniel Chin, Bruce P Hermann, Sterling C. Johnson

Variability

Individual differences in fear acquisition: Multivariate analyses of different Emotional Negativity scales, physiological responding, subjective measures, and neural activation (R)
Rachel Sjouwerman, Robert Scharfenort, Tina B Lonsdorf

To pool or not to pool: Can we ignore cross-trial variability in FMRI?Gang Chen, Srikanth Padmala, Yi Chen, Paul A Taylor, Robert W Cox, Luiz Pessoa

Other

Evaluation and Optimization of Motion Correction in Spinal Cord fMRI Preprocessing
Hamed Dehghani, Kenneth A Weber II, Seyed Amir Hossein Batouli, Mohammad Ali Oghabian, Ali Khatibi


(R) – Revision

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