Breadcrumb

Seminars & Workshops

Seminars Spring 2016

06/03/16 Simple neural networks cont.                                                                                                                                       Presented by Xiu Zhang and Rajkumar Theagarajan PDF
05/27/16

Simple neural networks.                                                                                                                                               Presented by Xiu Zhang and Rajkumar Theagarajan

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05/20/16 Data Mining with Weka: Attribute selection using the "wrapper" method.                                                    Presented by Giovanna Pozuelos and Asong Tambo PDF
05/13/16 More Data Mining with Weka, Class 3 cont.                                                                                                          Presented by Vincent On and Atena Zahedi  
05/06/16 More Data Mining with Weka, Class 3 cont.                                                                                                          Presented by Vincent On and Atena Zahedi PDF
04/29/16 More Data Mining with Weka, Class 3                                                                                                                      Presented by Vincent On and Atena Zahedi PDF
04/22/16 More Data Mining with Weka, Class 2                                                                                                                     Presented by Adam Witmer and Belinda Le PDF
04/15/16 Data Mining with Weka, Class 1                                                                                                                                    More Data Mining with Weka, Class 2                                                                                                                      Presented by Careen Khachatoorian and Reed Harrison                                                                                          Presented by Adam Witmer and Belinda Le PDF
04/08/16 Data Mining with Weka, Class 1                                                                                                                              Presented by Careen Khachatoorian and Reed Harrison  
04/01/16 Class Meeting                                                                                                                                                              Presented by Bir Bhanu  

Seminars Winter 2016

01/08/16 Class Meeting                                                                                                                                                              Presented by Bir Bhanu  
01/15/16 Introduction to Data Mining with Weka: Part 1                                                                                                    Presented by Xiu Zhang PDF
01/22/16 Introduction to Data Mining with Weka: Part 2                                                                                                   Presented by Xiu Zhang PDF
01/29/16 WEKA Ch.2: Testing, Training, and Evaluation: Part 1                                                                                     Presented by Adam Witmer and Belinda Le PDF
02/05/16 WEKA Ch.2: Testing, Training, and Evaluation: Part 2                                                                                     Presented by Adam Witmer and Belinda Le PDF
02/12/16 Data Mining with Weka                                                                                                                                             Presented by Careen Khachatoorian and Asong Tambo PDF
02/19/16 Data Mining with Weka                                                                                                                                             Presented by Vincent On and Atena Zahedi PDF
02/26/16

Data Mining with Weka                                                                                                                                           Presented by Vincent On and Atena Zahedi                                                                                                               Data Mining in Weka: Chapter 5, Putting it all together                                                                                            Presented by Giovanna Pozuelos and Reed Harrison

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03/04/16 Data Mining in Weka: Chapter 5, Putting it all together                                                                                  Presented by Giovanna Pozuelos and Reed Harrison PDF
03/11/16 Machine Learning and Bioinformatics Presentation                                                                                        Presented by Bir Bhanu PDF

Seminars Fall 2015

10/02/2015 Stem Cell Research: Where are we now?                                                                                                 Presented by Giovanna Pozuelos PDF
10/09/2015 Rethinking Differentiation: Stem Cells, Regeneration, and Plasticity                                               Presented by Belinda Le PDF
10/16/2015 Live cell imaging distinguishes bona fide human iPS cells from partially reprogrammed cells                                                                                                                                                                                                 Presented by Harrison Reed PDF
10/23/2015 Human Neural Stem Cell Growth and Differentiation in a Gradient-Generating Microfluidic Device.                                                                                                                                                                                      Presented by Adam Witmer PDF
10/30/2015 StemCellQC: A Smart-Detection Multiplexing Toolkit for Evaluation of Cellular Processes, Quality, and Biomarkers of Harm                                                                                                                                        Presented by Vincent On PDF
11/06/2015 Dynamic Bi-Modal Fusion of Images for the Segmentation of Pollen Tubes in Video                                                                                                                                                                                                                  Presented by Asong Tambo PDF
11/13/2015 Dynamic and Social Behaviors of Human Pluripotent Stem Cells                                                    Presented by Careen Khachatoorian PDF
11/20/2015 Time-Lapse Analysis of Human Embryonic Stem Cells Reveals Multiple Bottlenecks Restricting Colony Formation and Their Relief upon Culture Adaptation                                                                                                                                                                                                                                                                         Presented by Giovanna Pozuelos PDF
12/04/2015 In Vivo Time-Lapse Imaging of Cell Divisions During Neurogenesis in the Developing Zebrafish Retina.                                                                                                                                                                              Presented by Vincent On PDF

 Seminars Spring 2015

4/10/2015 Review: “Unifying Immunology with Informatics and Multiscale Biology” Presented By Reed Harrison PDF
4/17/2015 Quantitative High Content Imaging of Cellular Adaptive Stress Response Pathways in Toxicity for Chemical Safety Assessment Presented By Atena Zahedi [![](sites/g/files/rcwecm2166/files/pdf-icon.png)](https://cris.ucr.edu/IGERT/seminar.php)
4/24/2015 Facial Expression Recognition Presented By Belinda Le [![](sites/g/files/rcwecm2166/files/pdf-icon.png)](https://cris.ucr.edu/IGERT/seminar.php)
5/1/2015 "Multiscale Computational Models of Complex Biological Systems" by Walpole et al Presented By Melissa Eberle and Carissa Rodriguez [![](sites/g/files/rcwecm2166/files/pdf-icon.png)](https://cris.ucr.edu/IGERT/seminar.php)
5/8/2015 “Multi-Scale Modeling in Cell Biology” Presented By Careen Khachatoorian [![](sites/g/files/rcwecm2166/files/pdf-icon.png)](https://cris.ucr.edu/IGERT/seminar.php)
5/22/2015 Structural Systems Biology and Multiscale Signaling Models  Presented By Jillian Larsen and Erica Freeman [![](sites/g/files/rcwecm2166/files/pdf-icon.png)](https://cris.ucr.edu/IGERT/seminar.php)
5/29/2015 A Survey on Cloud Computing Presented By Katya Mkrtchyan [![](sites/g/files/rcwecm2166/files/pdf-icon.png)](https://cris.ucr.edu/IGERT/seminar.php)
6/5/2015 "Multiscale Models of Cell Signaling" by S. Bajikar and K. Janes. Presented by Vincent On and Asong Tambo [![](sites/g/files/rcwecm2166/files/pdf-icon.png)](https://cris.ucr.edu/IGERT/seminar.php)

 Seminars Winter 2015

1/16/2015 An Overview of Cellular Reprogramming Presented by Sabrina Lin PDF
1/23/2015 Computational Image Analysis of Colony and Nuclear Morphology to Evaluate Human iPSCs                        Presented by Atena Zahedi PDF
1/30/2015 Cellular Alchemy and the Golden Age of Reprogramming    Presented by Careen Khachatoorian PDF
2/06/2015 The Role of Transcription Factors for Inducing Pluripotent Stem Cells.                                                                                 Presented by Erica Freeman PDF
2/13/2015 Modulating Immune Response for Efficient Induction of Pluripotency                                                                                    Presented by Reed Harrison PDF
2/20/2015 "Induction of Pluripotent Stem Cells from Mouse Embryonic and Adult Fibroblast Cultures by Defined Factors"                                                                                                                                                                                         Presented by Carissa Rodriguez PDF
2/27/2015 _"Concise Review: Induced Pluripotent Stem Cells Versus Embryonic Stem Cells: Close Enough or Yet Too Far Apart?" by Bilic and Belmonte_                                                                                                                                                               Presented by Vincent On PDF
3/6/2015 "Review: Directing Cell Fate for Regenerative Medicine"                                                                                                                      Presented by Belinda Le PDF
3/13/2015 Using Cellular Reprogramming In Vivo to Regenerate Functional Neurons in Injury and Alzheimer’s Disease Models                                                                                                                                                                                                              Presented by Brett Bays PDF

Seminars Fall 2014

10/03/2014 Computational Methods for Mild Traumatic Brain Injury Presented by Anthony Bianchi PDF Visual and Contextual Modeling for the Detection of Repeated Mild Traumatic Brain Injury
10/17/2014 Integrated Model for Understanding Pollen Tube Growth in Video Presented by Asong Tambo PDF
10/24/2014 The Colored Revolution: An Introduction to Fluorescence Microscopy Presented by Jillian Larson PDF
11/7/2014 Informatics Challenges of High-Throughput Microscopy by Zhou and Wong Presented by Reed Harrison PDF
11/14/2014 Tracking in Molecular Bioimaging Presented by Careen Khachatoorian PDF
11/21/2014 Understanding the Mechanisms of Cell Migration and Morphology Presented by Atena Zahedi PDF
12/05/2014 Image Processing and 3D Reconstruction in Electron Microscopy Presented by Belinda Tran Le PDF
12/12/2014 Dynamic Migration and Cell-Cell Interactions of Early Reprogramming Revealed by High-Resolution Time-Lapse Imaging, by Cynthia M Megyola Presented by Vincent On PDF

Seminars Spring 2014

6/6/2014 Cell Segmentation: Quantitative High-speed Imaging Of Entire Developing Embryos With Simultaneous Multiview Light-sheet Microscopy                                                                                                                  Presented by Erica Freeman PDF Quantitative High-Speed Imaging of Entire Developing Embryos with Simultaneous Multi-view Light-sheet Microscopy
5/30/2014 FIJI Is Really ImageJ                                                                                                                                                                                                                                  Presented by Albert Cruz PDF Fiji
5/23/2014 Faster STORM Using Compressed Sensing                                                                                                                                                                                         Presented by Asong Tambo PDF Faster STORM Using Compressed Sensing
5/16/2014 Cell Segmentation: 50 Years Down the Road                                                                                                                                                                            Presented by Benjamin Guan PDF Cell Segmentation: 50 Years Down the Road
5/09/2014 Brain Programming for the Evolution of an Artificial Dorsal Stream                                                                                                                                                                                                                                                                                        Presented by Gustavo Olague, Ph.D. PDF Brain Programming for the Evolution of an Artificial Dorsal Stream
5/02/2014 Icy: An Open Bioimage Informatics Platform For Extended Reproducible Research                                                                                                                     Presented by Nolan Ung PDF Icy: An Open Bio-Image Informatics Platform for Extended Reproducible Research
4/25/2014 An Image Analysis Toolbox For High-throughput C. Elegans Assays                                                                                                                                                  Presented by Stephanie Coffman PDF An Image Analysis Toolbox for High-Throughput C. Elegans Assays
4/18/2014 Current Biological Software Tools                                                         Presented by Jillian Larsen PDF Biological Imaging Software Tools
4/11/2014 Video Bioinformatics                                                                                Presented by Bir Bhanu, Ph.D. PDF

Seminars Winter 2013

3/14/2014

Identification Of Genes Required For RNAi-mediated Antiviral Immunity In The Animal Model, C. Elegans                                                                               Presented by Stephanie Coffman

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3/07/2014 Dipole Modulated Charge Transfer And Tools For Experimental Molecular Mechanics                                                                                                                        Presented by Jillian Larsen PDF
2/28/2014 Video of Bioinformatics Databases                                                                           Presented by Ninad Thakoor, Ph.D. PDF
2/21/2014 "Quest For The Early Crest." Origin Of Neural Crest From Birds To Humans                                                                                                                                                      Presented by Martin Garcia-Castro, Ph.D. PDF
2/14/2014 Repeated Mild Traumatic Brain Injury Results In Long Term White Matter Disruption                                                                                                                          Presented by Virginia Donovan PDF Repeated Mild Traumatic Brain Injury Results in Long-Term White-Matter Disruption
2/07/2014 Drosophila Taste Receptors Reveal Combinatorial And Cross-modality Functions                                                                                                                          Presented by Erica Freeman PDF Detection of Sweet Tastants by a Conserved Group of Insect Gustatory Receptors
1/31/2014 Workshop on Adobe Premiere and Science Video Documentaries               Presented by Albert Cruz
1/24/2014 IGERT Poster Competition 2014 Stage 2                                                                                                                                                                                                      Presented by Brett Bays, Carissa Reynolds, and Asong Tambo PDF
1/17/2014 Spatio-temporal Patterns Of Alpha Band EEG Activity In A Perceptual Learning Paradigm: An In-progress Analysis                                                     Presented by Brett Bays PDF

 Seminars Fall 2013

**Date**
**Title**
**Presenter**
**Papers**
12/06/2013 IGERT Retreat Program and Video/Posters Jhon Gonzalez
11/22/2013 Image Super-Resolution: Current Approaches and Applications Le An
11/15/2013 MI-VIS: A 3D Visualization Application for Spatial Frequency Domain Imaging (SFDI) Data Michael Oliveira
11/08/2013 Integrated Model for Understanding Pollen Tube Growth Dynamics in Video Asong Tambo
11/01/2013 Bio-Optimized Segmentation of Blebs in Human Embryonic Stem Cell Videos Ben Guan
10/25/2013 Quantifying Endomembrane Dynamics Using Chemical Genomics and Image Informatics Nolan Ung
10/18/2013 Detecting Mild Traumatic Brain Injury Using Dynamic Low Level Context Anthony Bianchi
10/11/2013 Facial emotion recognition with anisotropic inhibited gabor energy histograms Albert Cruz
10/04/2013 Framework for Single Image Super-resolution Methods and Single Image Super-resolution for Natural Images Ben Sanders
09/27/2013 Revolutionizing the way we see in the brain Atena Zahedi

Seminars Spring 2013

**Date**
**Title**
**Presenter**
**Papers**
06/3/2013 Responsible Conduct of Research: Research Ethics and Integrity Charles E. Greer
05/20/2013 IGERT Information and Feedback Jhon Gonzalez
05/13/2013 Computational Conformal Geometry with its Applications in Shape Analysis Yalin Wang
05/06/2013 Video Bioinformatics Book Information Bir Bhanu
04/29/2013 Models of Cytoplasmic Streaming in Motile Amoeboid Cells Robert Guy
04/22/2013 Responsible Conduct of Research: Research Ethics and Integrity Charles E. Greer
04/15/2013 Data Stewardship for Researchers: Tips, Tools, and Guidance Carly Strasser
04/08/2013 Fast by Nature - How Stress Patterns Define Human Experience and Performance in Dexterous Tasks Ioannis Pavlidis, UH
04/01/2013 Computational Analysis of Human Embryonic Stem Cell Videos Predicts Health Index Brett Bays Vincent On Atena Zahedi

Seminars Winter 2013

**Date**
**Title**
**Presenter**
**Papers**
03/11/2013 Image Processing in MATLAB Albert Cruz Ninad Thakoor
03/04/2013 Entrepreneurship as a Career Choice - What to Expect Rajan Kasetty
02/25/2013 MATLAB Programming Introduction Albert Cruz Ninad Thakoor
02/11/2013 Ethics Training Bir Bhanu
02/04/2013 Funding Search Engines for Graduate Students Mitch Boretz
01/28/2013 IGERT Poster Competition Stage 2 Ilva Cabrera Geoffrey Harlow Stephanie Coffman
01/14/2013 Dose, Discrimination and Transcriptional Logic of Stem Cell Dynamics G. Venugopala Reddy
01/07/2013 How to become a better researcher? Bir Bhanu

Seminars Fall 2012

**Date**
**Title**
**Presenter**
**Papers**
12/03/2012 Targeting actin to regulate neuronal structure and synaptic connectivity Iryna Ethell
11/26/2012 IGERT on Video Bioinformatics Retreat Overview Jhon Gonzalez
11/19/2012 Characterizing Variation in Embryonic Patterning Among Drosophila Species Using a Spatio-Temporal Atlas of Gene Expression Charless Fowlkes
11/05/2012 Advances in physics-based character animation Victor Zordan
10/29/2012 IGERT on Video Bioinformatics Information Ninad Thakoor
10/22/2012 Imaging and Tracking Individual Biomolecules in Living Cells and Animals with Nanometer Precision using Peptide-based Fluorescent Nanomaterials and Probes Fabien Pinaud
10/15/2012 IGERT on Video Bioinformatics Retreat 2012 Bir Bhanu
10/08/2012 Harm Reduction Cigarette Smoke Impairs Dynamic Cell Process in Stem Cells and Pulmonary Fibroblasts Through Depolymerization of the Cytoskeleton Sabrina Lin
10/01/2012 Computational Analysis Reveals Increased Blood Deposition Following Repeated Mild Traumatic Brain Injury Virginia Donovan

Seminars Spring 2012

**Date**
**Title**
**Presenter**
**Papers**
06/01/2012 IGERT Poster Competition Anthony Bianchi
05/25/2012 Neuroimaging of repeated mild TBI Andre Obenaus Ph.D.
05/18/2012 Quantitative assessment of neurons with optical coherence tomography Hyle Park
05/11/2012 Novel Quantitative FRET Technologies for the Determinations of Protein Interaction Dissociation Constant, Kd, and Protease Kinetics, Kcat/KM Determinations Jiayu Liao
05/04/2012 Contextual and Visual Modeling for Detection of Mild Traumatic Brain Injury in MRI Anthony Bianchi
04/27/2012 Dynamics in a Broad Scale Valentine I. Vullev
04/20/2012 M cells: Imaging and Mucosal Immune Surveillance David Lo
04/13/2012 Updates in IGERT on Video Bioinformatics Bir Bhanu
04/06/2012 Zombie Survival Optimization: A Swarm Intelligence Algorithm Inspired By Zombie Foraging Hoang Nguyen

### Seminars Winter 2012

**Date**
**Title**
**Presenter**
**Papers**
03/16/2012 Finding and winning research funding Mitch Boretz
03/09/2012 Information Geometry and its Applications to Computer Vision and Medical Image Analysis Bab C. Vemuri
03/02/2012 Biomechanical Challenges in Abusive Head Trauma Mark Massi
02/24/2012 IGERT on Video Bioinformatics Poster Competition Stage 2 IGERT Fellows
02/17/2012 Quantitative Live-Cell Imaging: Increasing the possibilities with Cell-IQ JoAnne Montalbano
02/10/2012 IGERT on Video Bioinformatics Poster Competition Information Bir Bhanu
02/03/2012 Molecular Basis of Tumor Heterogeneity and Morphometric subtypes in Glioblastoma Multiforme (GBM) Bahram Parvin
01/27/2012 IGERT on Video Bioinformatics Internships Bir Bhanu
01/20/2012 A Fast, Automatic Computational Method for Injury Detection in T2 MRI Images Using a Symmetry-Based Algorithm Devin McBride
01/13/2012 Data Sampling for Live Biological Processes Albert Cruz

Seminars Fall 2011

**Date**
**Title**
**Presenter**
**Papers**
12/02/2011 High-Throughput Biology Approaches for Profiling Cellular Processes Thomas Girke
11/18/2011 Dynamic Health Index Derived from Morphological Changes used to Screen Chemicals for Toxicity in Stem Cell Colony Growth Douglas Hill
11/04/2011 Estimation of Cell Lineages in Confocal Microscopy Images of A Developing Plant Meristem Katya Mkrtchyan
10/21/2011 Understanding Discrete Facial Expression in Video Using Emotion Avatar Image Songfan Yang
10/14/2011 A Psychologically-Inspired Match-Score Fusion Model for Video-Based Facial Expression Recognition Albert Cruz
10/07/2011 Antiviral immunity and virus discovery by deep sequencing and computational algorithms Shou-Wei Ding
09/30/2011 Non-Dynamic Blebbing single unattached human embryonic stem cell detection in the complex cell clusters Ben Guan

Seminars Spring 2011

**Date**
**Title**
**Presenter**
**Papers**
06/03/2011 Research Ethics Workshop: Session 2 Dr. Charles F Louis
05/27/2011 Biologically-inspired Bacterial Foraging for Tracking Hoang Nguyen
05/20/2011 Utilization of Bioluminescence Resonance Energy Transfer (BRET) to monitor B-arrestin interactions in living cells Dr. Kathryn DeFea
05/13/2011 Discussion of IGERT on Video Bioinformatics Program Dr. Bir Bhanu
05/06/2011 Research Ethics Workshop: Session 1 Dr. Charles F Louis
04/29/2011 Finding and Winning Research Funding Mitch Boretz
04/22/2011 Automated injury detection from Brain MRI Dr. Nirmalya Ghosh
04/15/2011 Self-Assembled Nano-Materials for Optical Imaging and Phototherapy Dr. Bahman Anvari
04/8/2011 An introduction to Temporal Databases and Indexing Dr. Vassilis Tsotras
04/1/2011 Overview of the MPEG Reconfigurable Video Coding Initiative Dr. Philip Brisk

Seminars Winter 2011

**Date**
**Title**
**Presenter**
**Papers**
03/11/2011 To eat or not to eat: Analysis of receptors and neurons that guide feeding behavior decisions Dr. Anupama Dahanukar
03/04/2011 Quantitative Cellular Imaging Analysis William "Ned" Jastromb
02/25/2011 Study of pollen tube morphogenesis using mathematical and experimental approaches Dr. An Yan
02/18/2011 Tuning PLGA Microparticles for Single-Shot Vaccines: Transient Evaluation using TEM Dr. Victor Rodgers
02/11/2011 Polarity Establishment in Yeast Dr. Daniel Lew
02/04/2011 Image Based Growth Modeling In Plant Meristems Dr. Amit Roy-Chowdhury
01/28/2011 IGERT Students Poster Competition Anthony Bianchi Ben Guan
  • Characterization of Human Embryonic Stem Cell Differentiation into Osteoblasts
01/21/2011 Microfluidics Made Easy Dr. Valentine Vullev
01/14/2011 Natural Material Design: Engineering Materials that Work Dr. Julia Lyubovitsky

### Seminars Fall 2010

**Date**
**Title**
**Presenter**
**Papers**
12/03/2010 Analysis of static and moving images to quantify calcification of osteoblasts in culture Dr. Nicole I. zur Nieden
11/19/2010 Advances in Optical Coherence Tomography Dr. Hyle Park
11/12/2010 High-throughput genomics and signal transduction in filamentous fungi Dr. Katherine Borkovich
11/05/2010 Harm Reduction Cigarettes: Accessing its effects on early development using embryonic stem cell based assays Dr. Sabrina Lin
10/29/2010 Assessing Exposure to Nicotine and Tobacco Carcinogens - Recent Applications in Clinical Research Dr. Peyton Jacob
  • UCR Symposium on Tobacco-Related Disease Research 11:30am-12:00pm
10/29/2010 Differentiation of Human Germ Cells from Pluripotent Stem Cells Dr. Renee Reijo Pera
  • UCR Symposium on Tobacco-Related Disease Research 11:00am-11:30am
10/22/2010 Electron Microscope Tomography in Biological Research Dr. Albert Lawrence
10/15/2010 Segmentation of Low-contrast Images Dr. Bir Bhanu
10/08/2010 Computational challenges in barley genomics Dr. Stefano Lonardi
10/01/2010 Rational drug design: the compstatin paradigm Dr. Dimitrios Morikis
09/24/2010 A statistical approach for intensity loss compensation of confocal microscopy images Dr. Ninad Thakoor

Seminars 2009-2010

**Date**
**Title**
**Presenter**
05/20/2010 Radon transform Katya Mkrtchyan and Aaron Schooley
05/13/2010 Automated Tracking of Stem Cell Lineages of Arabidopsis Shoot Apex Using Local Graph Matching Min Liu and Anirban Chakraborty
05/06/2010 Segmentation of Complex Nucleus Configurations in Biology Images Ben Guan and Erica Freeman
04/29/2010 Use of Video Bioinformatics in Animal Behavior Studies Anthony Bianchi and Melissa Yoder
04/22/2010 Segmentation of center brains and optic lobes in 3D confocal images of adult fruit fly brains Virginia Donovan and Ben Sanders
04/15/2010 Image Retrieval for Highly Similar Objects Anthony Bianchi
03/11/2010 Recap Questions & Answers Presented by All
03/04/2010 Nonnegative Mixed-Norm Precondition for Microscopy Image Segmentation (Continue) Ben Guan
02/25/2010 Nonnegative Mixed-Norm Precondition for Microscopy Image Segmentation Ben Guan
02/18/2010 Visualizing Signals Moving in Cells Virginia Donovan
02/11/2010 Tracking in Molecular Bioimaging Anthony Bianchi
02/04/2010 Mitosis Through the Microscope: Advances in Seeing Inside Live Dividing Cells Melissa Yoder
01/28/2010 Deconvolution Methods for 3-D Fluorescence Microscopy Images Ben Sanders
01/21/2010 Color Revolution of Bioimaging Part 2 Ivann Martinez
01/14/2010 Color Revolution of Bioimaging Part 1 Albert Cruz
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