Journal Club
Schedule:
We meet at 2.30 pm every Friday at MD6-13-02N. If you have any trouble accessing the location, please contact Leon (90906081).
If you want to know more about the details of journal club schedule, please click the link here:
Please note that CogNeuroJC previously held on the third Monday of every month will be subsumed under YeoLab JC from April 2020 onwards.
Participants should come with the paper printed out or available on a laptop. Participants should ideally have spent at least 1-2 hours to gain a basic understanding.
Presenter should come with answers to each of these questions:
1) What problem is the paper addressing? Is this an interesting neuroscience/mathematical question? Is this an interesting mathematical problem?
2) What other methods/algorithms are out there that address the same/similar problem? Do authors compare with other algorithms?
3) What is the application the authors choose (if any)? Does the application illustrate the approach well?
4) What are the strengths and weaknesses of the paper? Bonus points if you find a weakness the authors did not acknowledge.
5) How can the paper be improved? What are possible future directions of research (not necessarily related to your own research)? Are there new applications you can think of?
6) What would you do differently if you approached this problem?
7) Be ready to answer detailed questions about the paper's methodology, background, etc. A good level of understanding is "Can I implement the paper myself?" It is possible the paper is lacking in details, so it's impossible to implement yourself. But you should know exactly what details are exactly missing and you should at least try to fill in the details (e.g., "The details are missing here, but if I were the authors, I would do it this way").
8) Even though the presenter is expected to understand the paper in details, the presenter should try to extract the core idea(s) and explain that to the audience in an intuitive fashion. Even if the paper is math-heavy, oftentimes one might be able to distill the essence by using a toy example or a simplified version of the problem the authors solve (edge cases often make the math complicated, but are unnecessary to appreciate the point of the paper).
9) What is the implication of the paper? Is there a far-reaching theoretical result/insight? A novel neuroscience finding? Is there an accompanying open software package that others can pick up and use on their own data/problem?
Upcoming YeoLab Journal Club.
Date: 14th June 2024, 3.00 - 4.30 pm
Location: MD6-13-02N
Title: Feather et al., Nature Neuroscience, "Model metamers reveal divergent invariances between biological and artificial neural networks". Presented by Yan Quan (Paper)
Abstract: Deep neural network models of sensory systems are often proposed to learn representational transformations with invariances like those in the brain. To reveal these invariances, we generated ‘model metamers’, stimuli whose activations within a model stage are matched to those of a natural stimulus. Metamers for state-of-the-art supervised and unsupervised neural network models of vision and audition were often completely unrecognizable to humans when generated from late model stages, suggesting differences between model and human invariances. Targeted model changes improved human recognizability of model metamers but did not eliminate the overall human–model discrepancy. The human recognizability of a model’s metamers was well predicted by their recognizability by other models, suggesting that models contain idiosyncratic invariances in addition to those required by the task. Metamer recognizability dissociated from both traditional brain-based benchmarks and adversarial vulnerability, revealing a distinct failure mode of existing sensory models and providing a complementary benchmark for model assessment.
Past Meetings:
24/5/24
Hermosillo et al., Nature Neuroscience, "A precision functional atlas of personalized network topography and probabilities". Presented by Yapei (Paper)
17/5/24
Favaretto et al., Nature Communications, "Subcortical-cortical dynamical states of the human brain and their breakdown in stroke". Presented by Shreya (Paper)
3/5/24
Parkes et al., Nature Translational Psychiatry, "Transdiagnostic dimensions of psychopathology explain individuals’ unique deviations from normative neurodevelopment in brain structure". Presented by Trevor (Paper)
26/4/24
Loshchilov et al., arXiv, "Decoupled Weight Decay Regularization". Presented by Zhang Chen (Paper)
19/4/24
Cheng et al., ACM, "Wide & Deep Learning for Recommender Systems". Presented by Pansheng (Paper)
5/4/24
Liu et al., arXiv, "A Decade’s Battle on Dataset Bias: Are We There Yet?". Presented by Naren (Paper)
22/3/24
Tuckute et al., Nature human behaviour, "Driving and suppressing the human language network using large language models". Presented by Hongwei (Paper)
15/3/24
Vafaii et al., Nature Communication, "Multimodal measures of spontaneous brain activity reveal both common and divergent patterns of cortical functional organization". Presented by Shaoshi (Paper)
8/3/24
Tian et al., Nature Medicine, "Heterogeneous aging across multiple organ systems and prediction of chronic disease and mortality". Presented by Lijun (Paper)
23/2/24
Camacho et al., Nature Neuroscience, "Large-scale encoding of emotion concepts becomes increasingly similar between individuals from childhood to adolescence". Presented by Aihuiping (Paper)
16/2/24
Salameh et al., Science, "Blood pressure pulsations modulate central neuronal activity via mechanosensitive ion channels." Presented by Csaba (Paper)(Supplement)
19/1/24
Lynch et al., BiorXiv, "Expansion of a frontostriatal salience network in individuals with depression". Presented by Ruby (Paper)
12/1/24
Gratton et al., Neuron, "Functional Brain Networks Are Dominated by Stable Group and Individual Factors, Not Cognitive or Daily Variation". Presented by Leon (Paper)
5/1/24
Pang et al., Nature, "Geometric constraints on human brain function". Presented by Sina (Paper)
19/12/23
Müller et al., Cell Reports, "The non-specific matrix thalamus facilitates the cortical information processing modes relevant for conscious awareness". Presented by Tianchu (Paper)
17/11/23
Shinn et al., Nature Neuroscience, "Functional brain networks reflect spatial and temporal autocorrelation". Presented by Yapei (Paper)
27/10/23
Finn et al., Nature Neuroscience, "Functional connectome fingerprinting: identifying individuals using patterns of brain connectivity". Presented by Yan Quan (Paper)
20/10/23
Wang et al., Neuropsychopharmacology, "Functional connectivity underpinnings of electroconvulsive therapy-induced memory impairments in patients with depression". Presented by Trevor (Paper)
13/10/23
Tian et al., JAMA Psychiatry, "Evaluation of Brain-Body Health in Individuals With Common Neuropsychiatric Disorders". Presented by Zhang Chen (Paper)
6/10/23
Dockès et al., Giga Science, "Preventing dataset shift from breaking machine-learning biomarkers". Presented by Pansheng (Paper)
29/10/23
Young et al., Nature Communications, "Uncovering the heterogeneity and temporal complexity of neurodegenerative diseases with Subtype and Stage Inference". Presented by Lijun (Paper)
22/9/23
Cutts et al., Cerebral Cortex, "Uncovering individual differences in fine-scale dynamics of functional connectivity". Presented by Leon (Paper)
15/9/23
Bramson et al., Nature Communications, "Anxious individuals shift emotion control from lateral frontal pole to dorsolateral prefrontal cortex". Presented by Xiaoxuan (Paper)
8/9/23
Zhao et al., Neuroimage, "Task fMRI paradigms may capture more behaviorally relevant information than resting-state functional connectivity". Presented by Aihuiping (Paper)
16/6/23
Pines et al., Neuron, "Development of top-down cortical propagations in youth". Presented by Shaoshi (Paper)
26/5/23
Han et al., PLOS Biology, "Reduced coupling between cerebrospinal fluid flow and global brain activity is linked to Alzheimer disease-related pathology". Presented by Csaba (Paper)
19/5/23
Elbau et al., Am J Psychiatry, "Functional Connectivity Mapping for rTMS Target Selection in Depression". Presented by Ruby (Paper)
12/5/23
Eyuboglu et al., arXiv, "Domino: Discovering Systematic Errors with Cross-Modal Embeddings". Presented by Tianchu (Paper)
5/5/23
Yang et al., BiorXiv, "Connectional Hierarchy in Human Brain Revealed by Individual Variability of Functional Network Edges". Presented by Yapei (Paper)
21/4/23
Kohsla et al., NeurIPS 2020, "Neural encoding with visual attention". Presented by Yan Quan (Paper)
14/4/23
Perkonigg et al., Nature Communications, "Dynamic memory to alleviate catastrophic forgetting in continual learning with medical imaging". Presented by Trevor (Paper)
17/3/23
Billot et al., Medical Image Analysis, "SynthSeg: Segmentation of brain MRI scans of any contrast and resolution without retraining" Presented by Kim Ngan (Paper)
24/2/23
Wang et al., PNAS, "Bias in machine learning models can be significantly mitigated by careful training: Evidence from neuroimaging studies" Presented by Zhang Chen (Paper)
17/2/23
Ouyang et al., IEEE, "Self-Supervised Learning for Few-Shot Medical Image Segmentation" Presented by Naren (Paper)
10/2/23
Pei et al., IEEE, "Data Augmentation for fMRI-Based Functional Connectivity and its Application to Cross-Site ADHD Classification" Presented by Pansheng (Paper)
3/2/23
Greene et al., Nature, "Brain–phenotype models fail for individuals who defy sample stereotypes" Presented by Leon (Paper)
27/1/23
Gordon et al., BiorXiv, "A mind-body interface alternates with effector-specific regions in motor cortex" Presented by Xiaoxuan (Paper)
20/1/23
Aslan et al., Neuroimage, "Extraction of the cardiac waveform from simultaneous multislice fMRI data using slice sorted averaging and a deep learning reconstruction filter" Presented by Csaba (Paper)
13/1/23
Roberts et al., Nature Communications, "Metastable brain waves" Presented by Shaoshi (Paper)
6/1/23
Perez et al., biorxiv, "Hemispheric Asymmetries of Individual Differences in Functional Connectivity" Presented by Aihuiping (Paper)
2/12/22
Markello et al., npj Parkinsons Dis 2021, "Multimodal phenotypic axes of Parkinson’s disease" Presented by Lijun (Paper)
18/11/22
Lynch et al., Neuron 2022, "Automated optimization of TMS coil placement for personalized functional network engagement" Presented by Ruby (Paper)
11/11/22
Roe et al., Nature Communications 2021, "Asymmetric thinning of the cerebral cortex across the adult lifespan is accelerated in Alzheimer’s disease" Presented by Heidi (Paper)
4/11/22
Siddiqi et al., Am J Psychiatry 2020, "Distinct Symptom-Specific Treatment Targets for Circuit-Based Neuromodulation" Presented by Trevor (Paper)
14/10/22
Whittington et al., ICLR 2022, "Relating Transformers to Models and neural Representations of the Hippocampal Formation" Presented by Yan Quan (Paper)
7/10/22
Wang et al., ICLR 2021, "TENT: Fully Test-Time Adaptation by Entropy Minimization" Presented by Kim Ngan (Paper)
30/9/22
VanRullen & Reddy, Communications Biology, "Reconstructing faces from fMRI patterns using deep generative neural networks" Presented by Zhang Chen (Paper)
16/9/22
Mils et al., Neuroimage, "Inter-individual variability in structural brain development from late childhood to young adulthood" Presented by Yapei (Paper)
9/9/22
Setzer et al., biorXiv, "A temporal sequence of thalamic activity unfolds at transitions in behavioral arousal state" Presented by Csaba (Paper)
2/9/22
Shanmugan et al., PNAS, "Sex differences in the functional topography of association networks in youth" Presented by Aihuiping (Paper)
26/8/22
Abrol et al., Nature Communications. "Deep learning encodes robust discriminative neuroimaging representations to outperform standard machine learning" Presented by Pansheng (Paper)
19/8/22
Rong et al., NeurIPS 2020. "Self-Supervised Graph Transformer on Large-Scale Molecular Data". Presented by Naren (Paper)
12/8/22
Grinsztajn et al., arXiv. Why do tree-based models still outperform deep learning on tabular data?". Presented by Xiaoxuan (Paper)
5/8/22
Lee and Chen, Nature Communications. "Predicting memory from the network structure of naturalistic events". Presented by Shaoshi (Paper)
29/7/22
Jaiswal et al., 34th AAAI. "Invariant Representations through Adversarial Forgetting". Presented by Lijun (Paper)
15/7/22
Traut et al., Neuroimage. Insights from an autism imaging biomarker challenge: promises and threats to biomarker discovery. Presented by Leon (Paper)
3/6/22
Segal et al., medRxiv. "Regional, circuit, and network heterogeneity of brain abnormalities in psychiatric disorders". Presented by Heidi (Paper)
27/5/22
Cash et al., Human Brain Mapping. "Personalized connectivity-guided DLPFC-TMS for depression: Advancing computational feasibility, precision and reproducibility". Presented by Ruby (Paper)
20/5/22
Ramesh et al. "Hierarchical Text-Conditional Image Generation with CLIP Latents". Presented by Zhang Chen (Paper)
22/4/22
Mu et al. "Knowledge-Guided Disentangled Representation Learning for Recommender Systems". Presented by Naren (Paper)
8/4/22
Ataka et al. "Label-Embedding for Attribute-Based Classification". Presented by Pansheng (Paper)
1/4/22
Baum et al. "Development of structure–function coupling in human brain networks during youth". Presented by Leon (Paper)
18/3/22
Niv. "Reinforcement learning in the brain". Presented by Xiaoxuan (Paper)
11/3/22
Froudist-Walsh et al. "A dopamine gradient controls access to distributed working memory in the large-scale monkey cortex". Presented by Shaoshi (Paper)
4/3/22
Matta et al. "Making an unknown unknown a known unknown: Missing data in longitudinal neuroimaging studies". Presented by Aihuiping (Paper)
25/2/22
Li et al. "Multi-site fMRI analysis using privacy-preserving federated learning and domain adaptation: ABIDE results". Presented by Lijun (Paper)
18/2/22
Ladwig et al. "BOLD cofluctuation ‘events’ are predicted from static functional connectivity". Presented by Csaba (Paper)
11/2/22
Kobak et al. "The Optimal Ridge Penalty for Real-world High-dimensional Data Can Be Zero or Negative due to the Implicit Ridge Regularization". Presented by Ruby (Paper)
4/2/22
Song et al. "Predicting attention across time and contexts with functional brain connectivity". Presented by Naren (Paper)
28/1/22
Zhang et al. "Transferability of Brain decoding using Graph Convolutional Networks". Presented by Pansheng (Paper)
21/1/22
Castro et al. "Causality matters in medical imaging". Presented by Leon (Paper)
14/1/22
Laumann et al. "Brain network reorganisation in an adolescent after bilateral perinatal strokes". Presented by Xiaoxuan (Paper)(Supplementary)
3/12/21
Picchioni et al. "Autonomic arousals contribute to brain fluid pulsations during sleep". Presented by Csaba (Paper)
26/11/21
Hawco et al. "Moving Beyond the Mean: Subgroups and dimensions of brain activity and cognitive performance across domains ". Presented by Farzaneh (Paper)
19/11/21
Ince et al. "Bayesian inference of population prevalence". Presented by Shaoshi (Paper)
12/11/21
Zhao et al. "Training confounder-free deep learning models for medical applications". Presented by Lijun (Paper)
22/10/21
Wightman et al. "ResNet strikes back: An improved training procedure in timm". Presented by Xiaolu (Paper)
15/10/21
Williams et al. "Geometric Deep Learning of the Human Connectome Project Multimodal Cortical Parcellation". Presented by Aihuiping (Paper)
1/10/21
Zheng et al. "DAGs with NO TEARS: Continuous Optimization for Structure Learning". Presented by Jianzhong (Paper)
24/9/21
Schrimpf et al. "The neural architecture of language: Integrative reverse-engineering converges on a model for predictive processing". Presented by Naren (Paper)
10/9/21
Betzel et al. "Individualized event structure drives individual differences in whole-brain functional connectivity". Presented by Ruby (Paper)
3/9/21
Frey et al. "MR-based camera-less eye tracking using deep neural networks". Presented by Farzaneh (Paper)
20/8/21
Sun et al. "Meta-Transfer Learning for Few-Shot Learning". Presented by Pansheng (Paper)
13/8/21
Shinn et al. "Spatial and temporal autocorrelation weave human brain networks". Presented by Leon (Paper)
6/8/21
Siddiqi et al. "Brain stimulation and brain lesions converge on common causal circuits in neuropsychiatric disease ". Presented by Xiaoxuan (Paper)
30/7/21
Gu et al. "Circuit Mechanisms of Top-Down Attentional Control in a Thalamic Reticular Model". Presented by Shaoshi (Paper)
23/7/21
He et al. "Momentum Contrast for Unsupervised Visual Representation Learning". Presented by Lijun (Paper)
16/7/21
Lachaux et al. "Unsupervised Translation of Programming Languages". Presented by Xiaolu (Paper)
9/7/21
Grathwohl et al. "Oops I Took A Gradient: Scalable Sampling for Discrete Distributions". Presented by Aihuiping (Paper)
8/7/21
Austin et al. "An Introduction to Propensity Score Methods for Reducing the Effects of Confounding in Observational Studies". Presented by Ruby (Paper)
4/6/21
Newbold et al. "Cingulo-opercular control network and disused motorcircuits joined in standby mode". Presented by Csaba (Paper)
21/5/21
Wyosocki et al. "Statistical control requires Causal justification". Presented by Jianzhong (Paper)
7/5/21
Nichol et al. "On First-Order Meta-Learning Algorithms". Presented by Pansheng (Paper)
30/4/21
Siegel et al., "Disruptions of network connectivity predict impairment in multiple behavioral domains after stroke". Presented by Xiaoxuan (Paper)
23/4/21
Dadi et al., "Beyond brain age: Empirically-derived proxy measures of mentalhealth". Presented by Leon (Paper)
9/4/21
Devlin et al. "BERT: Pre-training of Deep Bidirectional Transformers for Language Understanding". Presented by Xiaolu (Paper)
26/3/21
Stafenascu et al. "A Low Dimensional Description of Globally Coupled Heterogeneous Neural Networks of Excitatory and Inhibitory Neurons". Presented by Shaoshi (Paper)
12/3/21
Ng et al. "Deep Learning for Emotion Recognition on Small Datasets Using Transfer Learning ". Presented by Lijun (Paper)
5/3/21
Faskowitz et al. "Edge-centric functional network representations of human cerebral cortex reveal overlapping system-level architecture ". Presented by Aihuiping (Paper)
26/2/21
Yoo et al. "A cognitive state transformation model for task-general and task-specific subsystems of the brain connectome" Presented by Jianzhong (Paper)
19/2/21
Chen et al. "Resting-state 'physiological networks'". Presented by Csaba (Paper)
5/2/21
Ma et al. "The neural basis of intelligence in fine-grained cortical topographies". Presented by Ruby (Paper)
29/1/21
Smith et al. "Estimation of brain age delta from brain imaging". Presented by Leon (Paper)(Notes)
22/1/21
Niv. "The primacy of behavioral research for understanding the brain". Presented by Xiaoxuan (Paper)
14/1/21
Deco et al. "Awakening: Predicting external stimulation to force transitions between different brain states". Presented by Shaoshi (Paper)
4/1/21
Rezende et al. "Variational Inference with Normalizing Flows". Presented by Lijun (Paper)
14/12/20
Vaswani et al. "Attention Is All You Need". Presented by Xiaolu (Paper)
7/12/20
Lee et al. "Anticipation of temporally structured events in the brain". Presented by Aihuiping (Paper)
16/11/20
Yang et al. "Rethinking Bias-Variance Trade-off for Generalization of Neural Networks". Presented by Jianzhong (Paper)
9/11/20
Lynch et al. "Prevalent and sex-biased breathing patterns modify functional connectivity MRI in young adults ". Presented by Csaba (Paper)
2/11/20
Hong et al. "Toward a connectivity gradient-based framework for reproducible biomarker discovery ". Presented by Ruby (Paper)
26/10/20
Dinga et al. "Controlling for effects of confounding variables on machine learning predictions ". Presented by Leon (Paper)
19/10/20
Nenning et al. "Joint embedding: A scalable alignment to compare individuals in a connectivity space ". Presented by Xiaoxuan (Paper)
12/10/20
Müller et al. "Core and matrix thalamic sub-populations relate to spatio-temporal cortical connectivity gradients". Presented by Shaoshi (Paper)
5/10/20
Robinson et al. "Image-level Harmonization of Multi-Site Data using Image-and-Spatial Transformer Networks". Presented by Lijun (Paper)
28/9/20
Yuan et al. "Few Is Enough: Task-Augmented Active Meta-Learning for Brain Cell Classification". Presented by He Tong (Paper)
14/9/20
Li et al. "BrainGNN: Interpretable Brain Graph Neural Network for fMRI Analysis ". Presented by Xiaolu (Paper)
7/9/20
Gordon et al. "Default-mode network streams for coupling to language and control systems". Presented by Aihuiping (Paper)
31/8/20
"Correction of respiratory artifacts in MRI head motion estimates". Presented by Jianzhong (Paper 1)(Paper 2)(Paper 3)
24/8/20
Guntupalli et al. "A computational model of shared fine-scale structure in the human connectome" . Presented by Ruby (Paper)
17/8/20
Newbold et al. "Plasticity and Spontaneous Activity Pulses in Disused Human Brain Circuits". Presented by Csaba (Paper)
3/8/20
Sanchez-Gonzalez et al. "Hamiltonian Graph Networks with ODE Integrators". Presented by Xiaolu (Paper)
27/7/20
Kügelgen et al. "Simpson’s paradox in Covid-19 case fatality rates:a mediation analysis of age-related causal effects". Presented by Xiaoxuan (Paper)
20/7/2020
Kringelbach et al. "Dynamic coupling of whole-brain neuronal and neurotransmitter systems". Presented by Shaoshi (Paper)
13/7/2020
Russkikh et al. "Style transfer with variational autoencoders is a promising approach to RNA-Seq data harmonization and analysis". Presented by Lijun (Paper)
6/7/2020
Liu et al. "Rethinking the Value of Network Pruning". Presented by He Tong (Paper)
15/6/2020
Engemann et al. "Combining magnetoencephalography with magnetic resonance imaging enhances learning of surrogate-biomarkers ". Presented by Leon (Paper)
1/6/2020
Real et al. "AutoML-Zero: Evolving Machine Learning Algorithms From Scratch". Presented by Aihuiping (Paper).
18/5/2020
Yu et al. "An Auto-Encoder Strategy for Adaptive Image Segmentation". Presented by Jianzhong (Paper)(Notes)
11/5/2020
Özbay et al. "Sympathetic activity contributes to the fMRI signal". Presented by Csaba (Paper)
4/5/2020
Cheng et al. "Sleep duration, brain structure, and psychiatric and cognitive problems in children". Presented by Angela (Paper)
27/4/2020
Kaczkurkin et al. "Neurostructural Heterogeneity in Youths With Internalizing Symptoms". Presented by Valeria (Paper, Supplementary Material)
20/4/2020
Dadi et al. "Fine-grain atlases of functional modes for fMRI analysis". Presented by Ruby (Paper)
13/4/2020
Schotten et al. "Brain disconnections link structural connectivity with function and behaviour". Presented by Leon (Paper)
6/4/2020
Kaas. "The Organization of Neocortex in Mammals: Implications for Theories of Brain Function" (Paper) & Wandell et al. "Visual Field Maps in Human Cortex" (Paper). Presented by Xiaoxuan.
30/3/2020
Sanchez-Gonzalez et al. "Learning to Simulate Complex Physics with Graph Networks" Presented by Shaoshi (Paper)
23/3/2020
Tudosiu et al. "Neuromorphologicaly-preserving Volumetric data encoding using VQ-VAE" Presented by Lijun (Paper)
16/3/2020
Zink & Rose. "Fair regression for health care spending" Presented by Jianzhong (Paper)
9/3/2020
Moyer et al. "Scanner Invariant Representations for Diffusion MRI Harmonization" Presented by He Tong (Paper)
2/3/2020
Margulies et al. "Situating the default-mode network along a principal gradient of macroscale cortical organization" Presented by Xiaolu (Paper)
24/2/2020
Bijsterbosch et al. "The relationship between spatial configuration and functional connectivity of brain regions revisited" Presented by Aihuiping (Paper)
10/2/2020
Kaufmann et al. "Common brain disorders are associated with heritable patterns of apparent aging of the brain." Presented by Jianzhong (Paper)
3/2/2020
Cai et al. "Hyperdirect insula-basal-ganglia pathway and adult-like maturity of global brain responses predict inhibitory control in children." Presented by Valeria (Paper) (Supplemental Material)
13/1/2020
Fultz et al. "Coupled electrophysiological, hemodynamic, and cerebrospinal fluid oscillations in human sleep." Presented by Csaba (Paper) (Supplemental Material)
6/1/2020
Alnæs et al. "Patterns of socio-cognitive stratification and perinatal risk in the child brain." Presented by Angela (Paper)
9/12/2019
Tan & Le. "EfficientNet: Rethinking Model Scaling for Convolutional Neural Networks." Presented by HeTong (Paper)
18/11/2019
Lee et al. "Distinguishing pain from nociception, salience, and arousal: How autonomic nervous system activity can improve neuroimaging tests of specificity." Presented by Alvin (Chris) (Paper)
11/11/2019
Seitzman et al. "Trait-like variants in human functional brain networks." Presented by Aihuiping (Paper).
21/10/2019 and 4/11/2019
Mean field reduction of neural mass models (e.g. Peng et al 2019; Wong & Wang 2006). Presented by Xiaolu (notes)
14/10/2019
Sripada et al. "Prediction of neurocognition in youth from resting state fMRI" Presented by Jianzhong (Paper)
26/8/2019
Rosenberg et al. "Functional connectivity predicts changes in attention over minutes, days, and months " Presented by Ruby (Paper)
19/8/2019
Gratton et al. "Functional Brain Networks Are Dominated by Stable Group and Individual Factors, Not Cognitive or Daily Variation" Presented by Yan Rui Tan (Paper) (Supplementary Material)
5/8/2019
"Towards learning predictive patterns from big biomedical data" Presented by Danilo Bzdok
29/7/2019
Talk by John McGonigle
22/7/2019
Rosenberg et al. "Behavioral and Neural signatures of working memory in childhood" Presented by Angela Tam (Paper)(Supplemental Material)
15/7/2019
Wolfers et al. "Mapping the Heterogeneous Phenotype of Schizophrenia and Bipolar Disorder Using Normative Models. " Presented by He Tong (Paper)(Supplemental Material)
8/7/2019
Power et al. "Distinctions among real and apparent respiratory motions in human fMRI data " Presented by Csaba (Paper)
4/7/2019
"Hierarchical Specialization of Cortex: Large-scale Gradients Linking Microcircuitry, Anatomy, and Function" Presented by John Murray
13/5/2019
"An Integrated Analysis of Neural Network Correlates of Categorical and Dimensional Models of Attention-Deficit/Hyperactivity Disorder " Presented by Valeria Kebets (Paper)(Supplemental Material)
29/04/2019
"Discovery Algorithms without Causal Sufficiency " (Chapter 6) From Causation, Prediction and Search. Presented by Minh (Book)(Notes)(Jupyter Notebook)
8/04/2019
"Discovery Algorithms for Causally Sufficient Structures" (Chapter 5) From Causation, Prediction and Search. Presented by Minh Nguyen (Book)(Notes)(Jupyter Notebook)
18/03/2019
CCA (Notes) and PLS (Notes). Written by Nanbo.
25/02/2019
"Novel ways to probe brain function: beyond stationary functional connectivity measurements" Presented by Thomas Bolton
18/02/2019
Lepperod et al. "Inferring causal connectivity from pairwise recordings and optogenetics". Presented by Jingwei (Paper)(Notes)
18/02/2019
When to Standardize Predictors of Linear Regression. Written by Nanbo (Notes)
11/02/2019
"The role of tau neurofibrillary tangles in Alzheimer's disease" and "Gene expression in the hippocampus", Presented by Jacob Vogel.
28/01/2019
"Brain mapping and individual predictions" Presented by Simon Eickhoff.
14/1/2019
Marinescu et al."Quasi-experimental causality in neuroscience and behavioural research". Presented by Jingwei (Paper)
7/1/2019
"Individual variation in brain structure and function in Autism Spectrum Disorders: A subject-level distance-based approach". Presented by Emmanuel Pua.
10/12/2018
Marco et al. "“Why Should I Trust You?” Explaining the Predictions of Any Classifier ". Presented by Nanbo (Paper)
03/12/2018
Padarinath et al. "Inferring single-trial neural population dynamics using sequential auto-encoders". Presented by HeTong (Paper)(Supplementary Material)
26/11/2018
Han et al. "Functional Parcellation of the Cerebral Cortex Across the Human Adult Lifespan". Presented by Ruby (Paper)(Supplementary Material)
29/10/2018
Rajchl et al. "NeuroNet: Fast and Robust Reproduction of Multiple Brain Image Segmentation Pipelines". Presented by Minh (Paper)
22/10/2018
Dickie et al. "Personalized Intrinsic Network Topography Mapping and Functional Connectivity Deficits in Autism Spectrum Disorder". Presented by Yang Qing (Paper)(Supplementary Material)
15/10/2018
Cordani et al. "Endogenous modulation of human visual cortex activity improves perception at twilight.". Presented by Csaba (Paper)(Supplementary Material)
8/10/2018
Conti et al. "Improving Exploration in Evolution Strategies for Deep Reinforcement Learning via a Population of Novelty-Seeking Agents". Presented by Xiaolu (Paper)
1/10/2018
Becker et al. "Gaussian Process Uncertainty in Age Estimation as a Measure of Brain Abnormality". Presented by Jianzhong (Paper)
17/09/2018
de Lange et al. "Shared vulnerability for connectome alterations across psychiatric and neurological brain disorders". Presented by Valeria (Paper)(Supplementary Material)
10/09/2018
Rosefeld et al. "The Elephant in the Room". Presented by Hetong (Paper)
03/09/2018
Greene et al. "Task-induced brain state manipulation improves prediction of individual traits". Presented by Jingwei (Paper)(Supplementary Material)
20/08/2018
Figurnov et al. "Implicit Reparameterization Gradients". Presented by Nanbo (Paper)(Notes)
13/08/2018
Elliot et al. "A Connectome-wide Functional Signature of Transdiagnostic Risk for Mental Illness". Presented by Valeria (Paper)
06/08/2018
Nayebi et al. "Task-Driven Convolutional Recurrent Models of the Visual System." Presented by Kshitij Dwivedi (Paper)
30/07/2018
Yu et al. "Statistical harmonization corrects site effects in functional connectivity measurements from multi-site fMRI data". Presented by Jingwei
23/07/2018
Liu et al. "Subcortical evidence for a contribution of arousal to fMRI studies of brain activity" (Paper) and Turchi et al. "The Basal Forebrain Regulates Global Resting-State fMRI Fluctuations" (Paper). Presented by Csaba.
16/07/2018
Chhatwal et al. "Preferential Degradation of cognitive networks differentiates Alzheimer's disease from ageing" Presented by Nanbo (Paper)
09/07/2018
Dalca et al. "Anatomical Priors in Convolutional Networks for Unsupervised Biomedical Segmentation". Presented by Jianxiao (Paper)(Notes)
02/07/2018
Kingma et al "Auto-Encoding Variational Bayes" (Paper) and Dalca et al "Unsupervised Learning for Fast Probabilistic Diffeomorphic Registration". (Paper) Presented by Minh (Jupyter Notebook)
21/05/2018
Drysdale et al. "Resting-state connectivity biomarkers define neurophysiological subtypes of depression." Presented by Rajan (Paper)(Supplementary Material)
14/05/2018
Oktay et al. "Attention U-Net: Learning Where to Look for the Pancreas." Presented by Hetong (Paper)
07/05/2018
Xia et al. "Linked Dimensions of Psychopathology and Connectivity in Functional Brain Networks. " Presented by Nanbo. (Paper)(Notes)
23/04/2018
Salehi et al. "An exemplar-based approach to individualized parcellation reveals the need for sex specific functional networks. " Presented by Ruby. (Paper)
16/04/2018
"Top-down and bottom-up attentional control." Presentation by Takashi and Gwen
26/3/2018
Moser et al. “Multivariate Associations Among Behavioral, Clinical, and Multimodal Imaging Phenotypes in Patients With Psychosis.” Presented by Valeria (Paper)(Supplementary Material)
19/3/2018
Vidaurre et al. “Brain network dynamics are hierarchically organized in time.” Presented by Minh. (Paper)
12/3/2018
Hong et al. "Multidimensional Neuroanatomical Subtyping of Autism Spectrum Disorder." Presented by Siyi. (Paper)
26/1/2018
Saygin et al. "Anatomical connectivity patterns predict face selectivity in the fusiform gyrus." Presented by Jianxiao. (Paper)(Supplementary Materials)
14/1/2018
Wierstra et al. " Natural Evolution Strategies ", Presented by Jingwei (Paper)(Notes)
16/1/2018
Griffanti et al. "Hand classification of fMRI ICA noise components." Presented by Esther Wu and Chris Asplund. (Paper)
10/1/2018
"Highly predictive brain signature of individual clinical trajectories in Alzheimer's disease." Talk by Angela Tam.
21/11/2017
Geerligs et al. "Challenges in measuring individual differences in functional connectivity using fMRI: The case of healthy aging." Presented by Csaba (Paper)
7/11/2017
Costa et al. "Searching Multi-regression Dynamic Models of Resting-State fMRI Networks Using Integer Programming." Presented by Dragana (Paper)
17/10/2017
Hassabis et al. "Neuroscience-Inspired Artificial Intelligence." Presented by He Tong (Paper)
4/10/2017
"Neuroadaptive Bayesian optimization- Implications for the Cognitive Sciences" Talk by Dr. Romy Lorenz of Imperial College London.
26/9/2017
Zeighami et al., "A clinical-anatomical signature of Parkinson's Disease identified with partial least squares and magnetic resonance imaging." Presented by Nanbo. (Paper)
19/9/2017
"Understanding the person, Improving Psychotherapy: Preventing Relapse by targeting Emotion Modulation in PsychoTherapy (PRE-EMPT)". Presented by Geoffrey Tan. (Paper 1)(Paper 2)
12/2/2017
Lock et al., "Joint and Individual Variation Explained (JIVE) for Integrated Analysis of Multiple Data Types." Presented by Rajan. (Paper)
5/9/2017
Gordon et al., "Precision Functional Mapping of Individual Human Brains." Presented by Ruby Kong. (Paper)
28/08/2017
"Characterizing Modulatory Interactions in the Resting Brain." Talk by Prof. Bharat Biswal (New Jersey Institute of Technology)
24/08/2017
"What do we need to improve reproducibility and efficiency in brain imaging studies?" Talk by Prof. JB Poline (McGill)
"The Future of fMRI in Cognitive Neuroscience." Talk by Prof. Russell Poldrack (Stanford)
15/08/2017
Parisot et al. "Spectral Graph Convolutions for Population-based Disease Prediction", (Paper)(Notes) and Ktena et al. " Distance Metric Learning using Graph Convolutional Networks: Application to Functional Brain Networks", (Paper)(Notes) Presented by He Tong. (Notes)
08/08/2017
Kawahara et al., "BrainNetCNN: Convolutional neural networks for brain networks; towards predicting neurodevelopment ", Presented by Minh Nguyen. (Paper)
01/08/2017
Manning et al., "A neural signature of contextually mediated intentional forgetting ", Presented by Stevia Ng. (Paper)
25/07/2017
Ge et al., "Multidimensional heritability analysis of neuroanatomical shape ", Presented by Jingwei Li. (Paper)(Notes)
20/06/2017
Ecker et al., "Neuroimaging in autism-- from basic science to translational research ". Presented by Caroline Wong Kai Yun. (Paper)
30/05/2017
Latouche et al., "Variational Bayesian inference and complexity control for stochastic block models". Presented by Dragana Palvlovic. (Paper)
16/05/2017
Tong et al., "Studying the spatial distribution of physiological effects on BOLD signals using ultrafast fMRI". Presented by Rajan Kashyap. (Paper)
02/05/2017
Mumford et al., "Orthogonalization of Regressors in fMRI Models". Presented by Gia. (Paper)
25/04/2017
Chang et al., "Tracking brain arousal fluctuations with fMRI, PNAS 2015". Presented by Raphael. (Paper)
04/04/2017
Sarraf et al., "DeepAD: Alzheimer's Disease Classification via Deep Convolutional Neural Networks using MRI and fMRI". Presented by Nanbo. (Paper)
14/03/2017
Power et al.,"Source and implications of whole-brain fMRI signals in humans". Presented by Csaba. (Paper)
07/03/2017
Discussion on the topic of "Preprocessing Pipeline " with Helen's group. Presented by Ruby and Jingwei.
07/02/2017
Goodfellow et al.."Generative Adversarial Nets" on the topic of deep learning". Presented by He Tong (Paper)
17/01/2017
Cole et al.,"Activity flow over resting-state networks shapes cognitive task activations". Presented by Ruby Kong. (Paper)
10/01/2017
Kingma et al., "A method for stochastic optimization". Presented by Minh Nguyen. (Paper)
03/01/2017
Hindriks et al., "Can sliding-window correlations reveal dynamic functional connectivity in resting-state fMRI?". Prensented by Wang Chenhao (PhD student from Helen Zhou's Group) (Paper)
15/11/2016
Fair et al.,"Distinct neuropsychological subgroups in typically developing youth inform heterogeneity in children with ADHD". Presented by Nanbo Sun. (Paper)
08/11/2016
Kucukelbir et al., "Automatic Variational Inference in Stan". Presented by Gia (Paper)
25/10/2016
Dibmann et al., "Selecting and estimating regular vine copulae and application to financial returns" . Presented by Dragana Palvlovic. (Paper)
18/10/2016
Wager et al., "An fMRI-Based Neurologic Signature of Physical Pain". Presented by Ivan Teng po-Wen. (Paper) (Notes)
11/10/2016
Dibmann et al., "Selecting and estimating regular vine copulae and application to financial returns" . Presented by Dragana Palvlovic. (Paper)
27/09/2016
Eklund et al., "Cluster failure:Why fMRI inferences for spatial extent have inflated false-positive rates". Presented by Jingwei Li (Paper)
20/09/2016
Murphy et al., "Latent linear models" of Kevin Murphy's "Machine Learning A Probabilistic Perspective". Presented by Nanbo Sun.
13/09/2016
Murphy et al., "Latent linear models" of Kevin Murphy's "Machine Learning A Probabilistic Perspective". Presented by Nanbo Sun.
30/08/2016
Deco et al.,"The dynamics of resting fluctuations in the brain: metastability and its dynamical cortical core". Presented by Wang Peng. (Paper)
23/08/2016
Haufe et al., "On the interpretation of weight vectors of linear models in multivariate neuroimaging", Presented by Jingwei Li (Paper)
15/08/2016
"Behavioral correlates and potential predictors/markers of ADHD." Presented by Obana Takashi.
05/08/2016
Gu et al., 2015. "Controllability of structural brain networks." Nature Communications. Presented by Raphael Liegeois (Paper)
22/07/2016
Interesting papers from PRNI 2016. Presented by Ngo Hoang Gia.
15/07/2016
Guntupalli et al. "A Model of Representational Spaces in Human Cortex", Oxford University Press 2016. Presented by Ngo Hoang Gia. (Paper)
17/06/2016
"Local Cortical Circuit Model: Modeling cortical excitability in Alzheimer's disease", Presented by Peng Wang. (Presentation)
10/06/2016
OHBM rehearsal (Nanbo presented Xiuming's work). PRNI talk rehearsal (Gia).
27/05/2016
Christine Ecker et al. “The neuroanatomy of autism spectrum disorder: An overview of structural neuroimaging findings and their translatability to the clinical setting.” Autism, 2016. Presented by Nanbo Sun. (Paper)
29/04/2016
Tavor et al. “Task-free MRI predicts individual differences in brain activity during task performance.” Science, 2016. Presentated by Dragana Pavlovic. (Paper)
15/04/2016
Taubert et al. “Long-term effects of motor training on resting-state networks and underlying brain structure.” NeuroImage, 2011. Presented by Alex Schaefer. (Paper)
01/04/2016
1st ISMRM rehearsal. Ruby presented her and Alex's work.
18/03/2016
Adriana Banozic presented KAO project.
11/03/2016
Zanghi et al. “Clustering based on Random Graph Model embedding vertex features.” Pattern Recognition Letters, 2010. Presented by Dragana Pavlovic. (Paper)
05/03/2016
Teh et al. “Hierarchical Dirichlet Processes.” Journal of the american statistical association, 2006. Presented by Ngo Hoang Gia. (Paper)
26/02/2016
Chen et al. “Robust Nonrigid Registration by Convex Optimization.” ICCV, 2015. Presented by Yuanhao Gong. (Paper)
05/02/2016
Gordon et al. “Individual Variability of the System-Level Organization of the Human Brain.” Cerebral Cortex, 2015. Presented by Ruby Kong. (Paper)
05/01/2016
Power et al. “Methods to detect, characterize, and remove motion artifact in resting state fMRI.” Neuroimage, 2014. Presented by Jingwei Li. (Paper)
29/12/2015
Leonardi et al. “On spurious and real fluctuations of dynamic functional connectivity during rest.” Neuroimage, 2015. Presented by Raphael Liegeois. (Paper) (Notes)
22/12/2015
Hoffman et al. “Online learning for latent dirichlet allocation.” advances in neural information processing systems. 2010. Presented by Nanbo Sun. (Paper)(Notes)
01/12/2015
Finn et al. “Functional connectome fingerprinting: identifying individuals using patterns of brain connectivity.” Nature neuroscience, 2015. Presented by Alex Schaefer. (Paper)
11/24/2015
Laumann et al. "Functional system and areal organization of a highly sampled individual human brain", Neuron, 2015. Presented by Jingwei Li. (Paper)
03/01/2015
Misic et al. “Cooperative and Competitive Spreading Dynamics on the Human Connectome” Cell Neuron, 2015. Presented by Thomas Yeo. (Paper)
27/10/2015
Smith et al. “A positive-negative mode of population covariation links brain connectivity, demographics and behavior” Nat Neurosci, 2015. Presented by Xiuming Zhang. (Paper)
20/10/2015
Mitra et al. “Lag threads organize the brain's intrinsic activity” PNAS, 2015. Presented by Yuanhao Gong. (Paper)
13/10/2015
Lam, et al. "Clinical, imaging, and pathological heterogeneity of the Alzheimer's disease syndrome" Alzheimers Res Ther, 2013. Presented by Nanbo Sun. (Paper)
06/10/2015
Lempitsky et al. "Fusion moves for Markov random field optimization.", IEEE, 2010. Presented by Ruby Kong. (Paper)
15/09/2015
Robinson et al. “Multimodal surface matching: fast and generalisable cortical registration using discrete optimisation” in Information Processing in Medical Imaging,2013. Presented by Alex Schaefer. (Paper)
01/09/2015
Niaf et al. “Kernel-Based Learning from Both Qualitative and Quantitative Labels: Application to Prostate Cancer Diagnosis Based on Multiparametric MR Imaging. Presented by Sharmili Roy. (Paper)(Notes)
19/08/2015
Bernal-Rusiel et al. “Statistical analysis of longitudinal neuroimage data with Linear Mixed Effects models”, NeuroImage, 2013. Presented by Xiuming Zhang.(Paper)(Notes)
05/08/2015
Berclaz et al. “Multiple Object Tracking using K-Shortest Paths Optimization”, IEEE Transactions on PAMI, 2011. Presented by Anirban Chakraborty. (Paper)
15/07/2015
Xu et al. “Structure Extraction from Texture via Relative Total Variation”, ACM Transactions on Graphic, 2012. Presented by Yuanhao Gong. (Paper)
01/07/2015
Batra et al. “Diverse M-Best Solutions in Markov Random Fields”, ECCV, 2012. Presented by Jiesen Wang. (Paper)
03/06/2015
Ngo et al. “Fully Automated Non-rigid Segmentation with Distance Regularized Level Set Evolution Initialized and Constrained by Deep-structured Inference”, CVPR, 2014. Presented by Mahsa Paknezhad. (Paper)
20/05/2015
Harrison et al. “Large-scale probabilistic functional modes from resting state fMRI”, NeuroImage 2015. Presented by Ruby Kong. (Paper)
06/05/2015
Hjelm et al. “Restricted Boltzmann machines for neuroimaging: An application inidentifying intrinsic networks”, NeuroImage 2014. Presented by Alex Schaefer. (Paper)
08/04/2015
Grabner et al. “Tracking the invisible: Learning where the object might be”, CVPR 2010. Presented by Anirban Chakraborty. (Paper)
25/03/2015
Wang et al. “Geodesis patch-based segmentation.” in MICCAI, 2014. Presented by Stephanie Marchesseau Le Prado. (Paper)
18/02/2015
Ordonez et al. “From Large Scale Image Categorization to Entry-Level Categories.” in ICCV, 2013. Presented by Sharmili Roy. (Paper)
21/01/2015
Teh et al. “A Collapsed Variational Bayesian Inference Algorithm for Latent Dirichlet Allocation.” in Advances in neural information processing systems, 2006. Presented by Thomas Yeo (Paper)(Notes)
10/12/2014
Iglesias et al. “An algorithm for optimal fusion of atlases with different labeling protocols.” in Neuroimage, 2014. Presented by Ruby Kong. (Paper)
26/11/2014
Komodakis et al. “Approximate labeling via graph cuts based on linear programming.” in PAMI, 2007.Presented by Alex Schaefer. (Paper)
29/10/2014
Zhao et al. “Online Detection of Unusual Events in Videos via Dynamic Sparse Coding.” in CVPR, 2011.Presented by Anirban Chakraborty. (Paper)
15/10/2014
Jaakkola et al. “Exploiting generative models in discriminative classifiers.” in NIPS, 1999.Presented by Jiesen Wang (Paper)
01/10/2014
Wang et al. “Markov Random Field modeling, inference & learning in computer vision & image understanding: A survey.” in Computer Vision and Image Understanding, 2013.Presented by Sharmili Roy (Paper)
17/09/2014
Sabuncu et al. “A generative model for image segmentation based on label fusion.” in Medical Imaging, 2010.Presented by Thomas Yeo (Paper)
20/08/2014
Bai et al., “A probabilistic patch-based label fusion model for multi-atlas segmentation with registration refinement: application to cardiac MR images.” in Medical Imaging, 2013. Presented by Stephanie Marchesseau Le Prado (Paper)
23/07/2014
Da Mota et al, “Randomized Parcellation Based Inference”, in Inverse Problem 9, 1993. Presented by Alex Schaefer (Paper)
18/06/2014
Natterer et al, “Determination of tissue attenuation in emission tomography of optically dense media”, in Inverse Problem 9,1993. Presented by Gabriel Tjio (Paper)
23/05/2014
Julier et al, “Unscented Filtering and Nonlinear Estimation”, in Proc of IEEE 92(3), 2004. Presented by Stephanie Marchesseau Le Prado. (Paper)
08/05/2014
Belkin et al., “Laplacian Eigenmaps for Dimensionality Reduction and Data Representation”, in J. of Machine Learning Research, 2003. Presented by Kanwal Bhatia. (Paper)
24/04/2014
Blei et al., “Latent Dirichlet Allocation”, in J. of Machine Learning Research, 2003. Presented by Thomas Yeo.(Paper)
10/04/2014
Shepp et al., “Maximum likelihood reconstruction for emission tomography”, 1982. Presented by Ben Thomas. (Paper)
27/02/2014
(continuation) K. Nigam et al., “Text classification from labeled and unlabeled documents using EM”, in Machine Learning, 2000. Presented by Emilie Niaf. (Paper)
20/02/2014
K. Nigam et al., “Text classification from labeled and unlabeled documents using EM”, in Machine Learning, 2000. Presented by Emilie Niaf. (Paper)
06/02/2013
Kavukcuoglu et al, “Learning Convolutional Feature Hierarchies for Visual Recognition”,in NIPS, 2010. Presented by Gabriel Tjio. (Paper)
16/01/2013
Bishop et al. “Pattern Recognition and Machine learning: Chapter 5 - Neural Networks”, 2006. Presented by Ben Thomas (Book Chapter)
Following previous meeting, we covered section 5.3 on backpropagation.
19/12/2013
Bishop et al. (2006) “Pattern Recognition and Machine learning: Chapter 5 - Neural Networks”. Presented by Ben Thomas (Book Chapter)
We have only covered sections 5.1 and 5.2 of this book chapter at this meeting.
12/12/2013
Raina et al. (2007) “Self-taught Learning: Transfer Learning from Unlabeled Data”. Presented by Emilie Niaf. (Paper)(Supplementary Material)(Notes)
05/12/2013
Hinton et al. (2006) “Reducing the Dimensionality of Data with Neural Networks”. Presented by Thomas Yeo. (Paper)(Supplementary Material)(Notes)