1:00pm 1:10pm |
Welcome by the ITL director, Dr. Charles Romine |
1:10pm 1:20pm |
Opening remarks by
the conference chair, Dr. Peter Bajcsy |
1:20pm 2:20pm |
Keynote: Dr.
Winfried Denk, Max Planck Institute of Neurobiology;
Towards a circuit diagram of the brain
|
2:20pm 2:50pm |
Coffee Break |
2:50pm 3:30pm |
Session 1 (2x 20 min): Brain Imaging Chair: John Elliott, NIST
Roysam B:
Comprehensive Mapping of Cellular Alterations in Brain
Tissue.
Peng H.,
BigNeuron Project
|
3:30pm 4:00pm |
Coffee Break |
4:00pm 5:00pm |
Session 2 (3x 20 min): Large Scale Image Analyses Chair: Antonio Cardone, University of
Maryland at College Park
Pietzsch, T., Preibisch, S., Saalfeld, S., & Tomancak, P.
BigDataViewer: Visualization and Image Processing for
Terabyte Data Sets
Kumar VS, Williams
JW, Aggour KS, Sarachan
B, Al-Kofahi Y, Santamaria-Pang
A:
Collaborative Analysis of High-Content Image Data.
Economo, M. N.,
Clack, N. G., Arthur, B. J., Bruns, C., & Chandrashekar, J. (2015).
Registration and visualization
of large-scale 3D mosaic images.
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5:00pm 6:00pm |
Transportation to
hotel |
8.30am 8:40am |
Announcements:
BII2016 in Singapore and Call for BII2017 proposals
|
8.40am 9:40am |
Keynote:
Dr. Ivo Sbalzarini, Max Planck Institute of Molecular Cell Biology and
Genetics;
Model-based Image Analysis for Fluorescence Microscopy
|
9:40am 10:00am |
Break |
10:00am 11:00am |
Session 3 (4 x 15
min): Cell Imaging Chair: Michael Halter, NIST Yi J, Barr V, Manna
AK, Hong J, Neuman KC, Samelson LE:
Signaling Microclusters in T cells.
Camp, C. H., Lee, Y.
J., & Cicerone, M. T. :
Quantitative , Comparable
Hyperspectral Chemical Imaging of Biological Specimens with Broadband
Coherent Anti-Stokes Raman Scattering ( BCARS ) Microspectroscopy.
Joshi R, Swaminathan SR, Winter M, Saini JS, Blenkinsop
TA, Stern J, Temple S, Cohen AR:
Measuring visual
structure in phase and fluorescence microscopy using image compression.
Traver M, Schaefer B,
Campanello L, Losert W, Shroff H:
Mechanisms of T Lymphocyte Activation
Revealed by Super-Resolution Microscopy.
|
11:00am 11:20am |
Coffee Break |
11:20am 12:30am |
Parallel Sessions 4
(60 min presentations and 10 min discussion per session): Conference
Challenges
Stitching Challenge in
Green Auditorium Chaired by Joe Chalfoun, NIST ·
Chalfoun J.: Stitching Challenge - Evaluation Methodology ·
Sun, C.: Stitching Challenge: CSIRO-QI. ·
Wait, E., Winter, M., & Cohen,
A.:
Stitching Challenge: Normalized Covariance Image Stitching Technique for
Rigid Registration of Microscope Tiles.
·
Yang, G. Stitching Challenge: i2k Align v3.0. ·
Wang, C.-W.: Stitching Challenge: Linear Blending. ·
Discussion
Cell Nucleus Counting
Challenge in Lecture Room A: Chaired by Maric
Dragan, NIH ·
Maric D.: Nucleus Counting
Challenge: Nucleus counting in brain immune-histology applications: A crucial requirement to study tissue remodeling after ischemic and traumatic brain injury. ·
Wang C. & Yu G.: Nucleus Counting Challenge Method ·
Discussion |
12:30pm 2:00pm |
Lunch and Poster
Session |
2:00pm 3:00pm |
Keynote: Stephen
Smith, Allen Institute of Brain Science,
Toward Photonic Connectomes
|
3:00pm 3:30pm |
Coffee Break |
3:30pm 4:30pm |
Session 5 (4 x 15
min): Cell Image Analyses Chair: Andrew Cohen, Drexel University
Hirose O, Kawaguchi
S, Tokunga T, Teramoto T,
Kuge S, Ishihara T, Toyoshima Y, Iino Y, Yoshida R:
SPF-CellTracker: Tracking multiple cells with strongly-correlated moves
using a spatial particle filter.
Mankowski WC, Konica
G, Winter MR, Chen F, Maus C, Merkle
R, Klingmuller U, Hofer T, Kan
A, Heinzel S, Oostindie
S, Hodgkin P, Cohen AR:
Multi-Modal Segmentation for Quantifying Fluorescent
Cell Cycle Indicators Throughout Clonal Development.
Matuszewski DJ,
Sintorn IM, Puigvert JC, Wahlby C:
Comparing cell cycle analysis using flow cytometry and image-based screening.
Kwee, E., Powel, K., & Muschler, G.:
Characterization
of connective tissue progenitors through phase contrast and multicolor
fluorescence time-lapse microscopy
|
4:30pm 5:30pm |
Transportation to
hotel |
6:00pm |
Banquet at the hotel
location |
8.30am 9:30am |
Keynote: Dr.
Jean-Karim Hιrichι, European Molecular Biology
Laboratory;
Building a canonical model of the human mitotic cell
|
9:30am 9:50am |
Break |
9:50am 10:50am |
Session 6 (4 x 15 min): Morphology Analyses Chair: Carl Simon, NIST
Singh S:
Morphological Profiling for Targeting Diseases and Characterizing Compounds.
Florczyk SF, Baker P, Bodhak S, Juba D, Cardone A, Pine PS, Brady M, Sarkar S, Bajcsy
P, Chen D, Simon CG:
3D Cellular Morphotyping of Scaffold
Niches.
Goldberg IG:
Pattern
recognition with markerless, stain-free,
non-destructive imaging.
Bartholomew, A., Szilagyi, E., Patil, R., Premand, K., & Yu, J.:
The Need for Highly Sensitive Imaging as a Rapid Functional Test of Mesenchymal Stem Cell (MSC) Therapeutics.
|
10:50am 11:10am |
Coffee Break |
11:10am 12:10am |
Session 7 (4x 15
min): BigNeuron and Neuron Reconstruction Chair:
Hanchuan Peng, Allen Institute for Brain Science
Chen H.:
High-throughput color-separation of neurons in BigNeuron
Gu L. and Cheng L.: Learning to Improve Single Neuron Segmentation
Wang C-W.:
Automatic
tracing and registration of multi-dimensional microscopic images in high resolution
Zhao T.:
Neuron
Tracing Methods in NeuTu
Zhou, J. Toward 3D Synaptic Distributed Analysis with Neuron Reconstruction.
|
12:10pm 1:00pm |
Lunch |
1:00pm 2:00pm |
Session 8 (4 x 15
min): Large Scale Image Visualization Chair: Peter Bajcsy, NIST
Torosdagli N, Pattanaik S, Lisle C, Liu Y:
Web
based Out-of-Core Volume Visualization in Client-Server Architectures.
Wait E, Winter M,
Song S, Monteleone D, Cohen A, Bjornsson
CF, Goderie S, Temple S:
Collaborative
Visualization in the Browser for Segmentation , Tracking , and Lineaging with 5-D Biological Microscopy Images.
Harrington KIS,
Stiles TS, Venkatraman L, Prahst, C, Bentley K:
Functional
Image Processing with ImageJ/FIJI.
Cardona A.:
Quantitative
Cellular Neuroanatomy as the Foundation for Mapping Neural Circuits from
Electron Microscopy
|
2:00pm 3:00pm |
Session 9 (4 x 15
min): Machine Learning Chair: Jana Kosecka, George Mason University
Wang Y, Wang Y, Yu
G, Shi G, Tian L:
PPSD : Probability Principled
Synapse Detection.
Rajabi Z, Kosecka J,
Bajcsy P:
Confidence Estimation in Stem Cell Classification.
Ji S:
Deep Learning
for Bioimage Informatics.
Gu L, Chen L:
Learning to Boost Filamentary Structure Segmentation.
|
3:00pm 3:30pm |
Coffee Break |
3:30pm 4:15pm |
Session 10 (3x 15 min): Microscopy Image Analysis Environments Chair: Charles Camp, NIST
Nandy K, Liu Y, Mott
D, Meaburn K, Misteli T,
Lockett SJ, Gudla PR:
MiPipeline
( Microscopy Pipeline ): A User Friendly Software Environment for Microscopy
Image Analysis and Informatics.
Carrol MG, Swedlow JR:
The Open Microscopy Environment : Open Source Image
Informatics for the Biological Sciences.
Xiao M, Zou C, Sheppard K, Krebs M:
OCT Image Stack Alignment: one more important preprocessing step.
|
4:15pm 4:20pm |
Closing remarks by the conference chair, Dr. Peter Bajcsy
|
4:20pm 5:20pm |
Transportation to
hotel |
Poster IDs are below
1.
Cardone
A, Kociolek M, Brady M, Bajcsy P:
Estimating Actin
Fiber Orientation using Interpolation-Based Gray-Level Co-Occurrence Matrix
Computation.
In BioImage Informatics conference;
2015.
|
2. Cardone
A, Kociolek M, Chalfoun J, Bhadriraju K, Peskin A, Brady M, Bajcsy P:
Segmentation and
feature-based analysis of sub-cellular microscopy images.
In BioImage Informatics conference; 2015.
|
3. Chen D,
Candia J, Driscoll MK, Losert W, Sarkar S, Florczyk SJ, Bodhak S, Simon CG,
Dunkers JP:
Machine Learning Based Methodology to Identify Cell Shape
Phenotypes Associated with Microenvironmental Cues.
In BioImage Informatics conference; 2015:68.
|
4. Coletta
CE, Goldberg IG:
The WND-CHARM Python API Pythonic
Pattern Recognition for Bioimage Informatics.
In BioImage Informatics conference; 2015:5.
|
5. De J,
Cheng L, Lin F:
Tracing Filamentary Structures in Neuronal Images.
In BioImage Informatics conference; 2015:14. |
6. Litorja
M, Samarov D:
Use of Image Segmentation Algorithm
to Test Model Spectral Distribution for Surgical Lighting.
In BioImage Informatics conference; 2015. |
7. Majurski
M, Zheng C, Chalfoun J, Dima A, Brady M:
Shape Descriptors Comparison for
Cell Tracking.
In BioImage Informatics conference;
2015:14. |
8. Ranefall
P, Wahlby C:
Your New Default Thresholding
Method ? A robust global gray-level thresholding method based on object features.
In BioImage Informatics conference; 2015. |
9. Shen Y,
Losert W, Candia J, Morozov A:
Automated analysis
pipeline for high throughput screening data on the single cell level.
In BioImage Informatics conference; 2015. |
10. Shirtz
AE, Koos DS, Pollack H, Moats R, Warburton D:
Extended Volume Creation in Z Using Speeded Up Robust Features.
In BioImage Informatics conference; 2015:24. |
11.
Zhou J, Yang L, Ye B:
QTIP :
Quantifier for Topographic Index of Presynaptic-terminal using 3D Confocal
Imaging.
In BioImage Informatics conference; 2015. 12.
Pietzsch, T., Preibisch, S., Saalfeld, S.
& Tomancak, P.
BigDataViewer: Visualization and
Image Processing for Terabyte Data Sets.
in BioImage Informatics Conf. 2015. 13.
Chalfoun, J., Majurski, M., Blattner, T.,
Keyrouz, W., Bajcsy, P., & Brady, M.:
MIST: Microscopy Image Stitching
Tool.
In BioImage Informatics Conf. 2015. 14.
Simon, M., Florczyk, S.J., Juba, D., Baker,
P.J., Simon, C.G.J., Brady, M., & Bajcsy, P.:
Segmentation of Large
Numbers of 3D Cells on Different Scaffolds.
In BioImage
Informatics Conf. 2015. 15.
Vandecreme, A., Majurski, M., Chalfoun, J.,
Scott, K., Scott, J.H.J., Brady, M., & Bajcsy, P.:
From Image Tiles to
Web-Based Interactive Measurements.
In BioImage
Informatics Conf. 2015. 16.
Juba, D., Cyrus T., & Keyrouz, W.:
Cell Visualization
on a Desktop Display Wall.
In BioImage Informatics
Conf. 2015. |
17.
Tohsato, Y., Kyoda, K., Ho, K.H.L., & Onami, S.:
SSBD: An Integrated Database of Quantitative Data and Microscopy Images of Biological Dynamics.
In BioImage Informatics conference;
2015.
|
18.
Dogan, G., Bernal, J., & Hagwood, C.R.:
Fast Computation of Elastic Shape Distance between 2d Objects.
In BioImage Informatics conference;
2015.
|
19.
Elliott, J., Cooksey, G., & Plant, A.:
Developing Image-Based Measurements to Characterize Stem Cells Cultured as Colonies.
In BioImage Informatics conference;
2015.
|
20.
Dogan, G.:
A Python Toolbox for Shape Detection and Analysis in Images.
In BioImage Informatics conference;
2015.
|
21.
Halter, M., Bier, E., DeRose, P.C., Cooksey, G.A., Choquette, S.J., Plant, A.L., & Elliott, J.T.:
Performance Benchmarking a Widefield Fluorescence Microscope Using Fluorescent Glass.
In BioImage Informatics conference;
2015.
|
22.
Halter, M., Lund, S., Li-Baboud, Y.-S., Peskin, A.P., Bajcsy, P., Hoeppner, D.J., & Plant, A.L.:
Reducing Uncertainty in the Evaluation of Stem Cell Colonies.
In BioImage Informatics conference;
2015.
|
23.
Baker, P. J., Lin, N. J., Pintar, A. L., Lin-Gibson, S. & Lopez-Perez, D.:
Evaluating the Activity of an Anti-biofilm Agent via Imaging
In BioImage Informatics conference;
2015.
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24.
Schaub, N. J., Halter, M., Hotaling, N., Bharti, K. & Simon, C. A Simple:
Robust Microscopy Method for Quantifying Absorption.
In BioImage Informatics conference;
2015.
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25.
Peterson, A. W., Halter, M., Tona, A., Bhadriraju, K., Elliott, J. T., & Plant, A. L., . In BioImage Informatics Conf. 2015.
High Resolution Surface Plasmon Resonance Imaging of Focal Adhesions in Single Cells.
In BioImage Informatics conference;
2015.
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