Research in the field of collaboration shows that students do not spontaneously collaborate with each other. A system that can measure collaboration in real time could be useful by, for example, helping the teacher locate a group requiring guidance. To address this challenge, my research focuses on building and comparing collaboration detectors for different types of classroom problem solving activities, such as card sorting and hand writing. I am also studying transfer: how collaboration detectors for one task can be used with a new task. Finally, we attempt to build a teachers dashboard that can describe reasoning behind the triggered alerts thereby helping the teachers with insights to aid the collaborative activity. Data for building such detectors were collected in the form of verbal interaction and user action logs from students’ tablets. Three qualitative levels of interactivity was distinguished: Collaboration, Cooperation and Asymmetric Contribution. Machine learning was used to induce a classifier that can assign a code for every episode based on the set of features. Our preliminary results indicate that machine learned classifiers were reliable.
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Collaboration detection that Preserves privacy of student's speech
Collaboration is a 21st Century skill as well as an effective method for learning, so detection of collaboration is important for both assessment and instruction. Speech-based collaboration detection can be quite accurate but collecting the speech of students in classrooms can raise privacy issues. An alternative is to send only whether or not the student is speaking. That is, the speech signal is processed at the microphone by a voice activity detector before being transmitted to the collaboration detector. Because the transmitted signal is binary (1 = speaking, 0 = silence), this method mitigates privacy issues. However, it may harm the accuracy of collaboration detection. To find out how much harm is done, this study compared the relative effectiveness of collaboration detectors based either on the binary signal or high-quality audio. Pairs of students were asked to work together on solving complex math problems. Three qualitative levels of interactivity was distinguished: Interaction, Cooperation and Other. Human coders used richer data (several audio and video streams) to choose the code for each episode. Machine learning was used to induce a detector to assign a code for every episode based on the features. The binary-based collaboration detectors delivered only slightly less accuracy than collaboration detectors based on the high quality audio signal.
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- Award ID(s):
- 1840051
- NSF-PAR ID:
- 10185616
- Date Published:
- Journal Name:
- Artificial Intelligence in Education, AIED 2019
- Page Range / eLocation ID:
- 501-517
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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Obeid, I. (Ed.)The Neural Engineering Data Consortium (NEDC) is developing the Temple University Digital Pathology Corpus (TUDP), an open source database of high-resolution images from scanned pathology samples [1], as part of its National Science Foundation-funded Major Research Instrumentation grant titled “MRI: High Performance Digital Pathology Using Big Data and Machine Learning” [2]. The long-term goal of this project is to release one million images. We have currently scanned over 100,000 images and are in the process of annotating breast tissue data for our first official corpus release, v1.0.0. This release contains 3,505 annotated images of breast tissue including 74 patients with cancerous diagnoses (out of a total of 296 patients). In this poster, we will present an analysis of this corpus and discuss the challenges we have faced in efficiently producing high quality annotations of breast tissue. It is well known that state of the art algorithms in machine learning require vast amounts of data. Fields such as speech recognition [3], image recognition [4] and text processing [5] are able to deliver impressive performance with complex deep learning models because they have developed large corpora to support training of extremely high-dimensional models (e.g., billions of parameters). Other fields that do not have access to such data resources must rely on techniques in which existing models can be adapted to new datasets [6]. A preliminary version of this breast corpus release was tested in a pilot study using a baseline machine learning system, ResNet18 [7], that leverages several open-source Python tools. The pilot corpus was divided into three sets: train, development, and evaluation. Portions of these slides were manually annotated [1] using the nine labels in Table 1 [8] to identify five to ten examples of pathological features on each slide. Not every pathological feature is annotated, meaning excluded areas can include focuses particular to these labels that are not used for training. A summary of the number of patches within each label is given in Table 2. To maintain a balanced training set, 1,000 patches of each label were used to train the machine learning model. Throughout all sets, only annotated patches were involved in model development. The performance of this model in identifying all the patches in the evaluation set can be seen in the confusion matrix of classification accuracy in Table 3. The highest performing labels were background, 97% correct identification, and artifact, 76% correct identification. A correlation exists between labels with more than 6,000 development patches and accurate performance on the evaluation set. Additionally, these results indicated a need to further refine the annotation of invasive ductal carcinoma (“indc”), inflammation (“infl”), nonneoplastic features (“nneo”), normal (“norm”) and suspicious (“susp”). This pilot experiment motivated changes to the corpus that will be discussed in detail in this poster presentation. To increase the accuracy of the machine learning model, we modified how we addressed underperforming labels. One common source of error arose with how non-background labels were converted into patches. Large areas of background within other labels were isolated within a patch resulting in connective tissue misrepresenting a non-background label. In response, the annotation overlay margins were revised to exclude benign connective tissue in non-background labels. Corresponding patient reports and supporting immunohistochemical stains further guided annotation reviews. The microscopic diagnoses given by the primary pathologist in these reports detail the pathological findings within each tissue site, but not within each specific slide. The microscopic diagnoses informed revisions specifically targeting annotated regions classified as cancerous, ensuring that the labels “indc” and “dcis” were used only in situations where a micropathologist diagnosed it as such. Further differentiation of cancerous and precancerous labels, as well as the location of their focus on a slide, could be accomplished with supplemental immunohistochemically (IHC) stained slides. When distinguishing whether a focus is a nonneoplastic feature versus a cancerous growth, pathologists employ antigen targeting stains to the tissue in question to confirm the diagnosis. For example, a nonneoplastic feature of usual ductal hyperplasia will display diffuse staining for cytokeratin 5 (CK5) and no diffuse staining for estrogen receptor (ER), while a cancerous growth of ductal carcinoma in situ will have negative or focally positive staining for CK5 and diffuse staining for ER [9]. Many tissue samples contain cancerous and non-cancerous features with morphological overlaps that cause variability between annotators. The informative fields IHC slides provide could play an integral role in machine model pathology diagnostics. Following the revisions made on all the annotations, a second experiment was run using ResNet18. Compared to the pilot study, an increase of model prediction accuracy was seen for the labels indc, infl, nneo, norm, and null. This increase is correlated with an increase in annotated area and annotation accuracy. Model performance in identifying the suspicious label decreased by 25% due to the decrease of 57% in the total annotated area described by this label. A summary of the model performance is given in Table 4, which shows the new prediction accuracy and the absolute change in error rate compared to Table 3. The breast tissue subset we are developing includes 3,505 annotated breast pathology slides from 296 patients. The average size of a scanned SVS file is 363 MB. The annotations are stored in an XML format. A CSV version of the annotation file is also available which provides a flat, or simple, annotation that is easy for machine learning researchers to access and interface to their systems. Each patient is identified by an anonymized medical reference number. Within each patient’s directory, one or more sessions are identified, also anonymized to the first of the month in which the sample was taken. These sessions are broken into groupings of tissue taken on that date (in this case, breast tissue). A deidentified patient report stored as a flat text file is also available. Within these slides there are a total of 16,971 total annotated regions with an average of 4.84 annotations per slide. Among those annotations, 8,035 are non-cancerous (normal, background, null, and artifact,) 6,222 are carcinogenic signs (inflammation, nonneoplastic and suspicious,) and 2,714 are cancerous labels (ductal carcinoma in situ and invasive ductal carcinoma in situ.) The individual patients are split up into three sets: train, development, and evaluation. Of the 74 cancerous patients, 20 were allotted for both the development and evaluation sets, while the remain 34 were allotted for train. The remaining 222 patients were split up to preserve the overall distribution of labels within the corpus. This was done in hope of creating control sets for comparable studies. Overall, the development and evaluation sets each have 80 patients, while the training set has 136 patients. In a related component of this project, slides from the Fox Chase Cancer Center (FCCC) Biosample Repository (https://www.foxchase.org/research/facilities/genetic-research-facilities/biosample-repository -facility) are being digitized in addition to slides provided by Temple University Hospital. This data includes 18 different types of tissue including approximately 38.5% urinary tissue and 16.5% gynecological tissue. These slides and the metadata provided with them are already anonymized and include diagnoses in a spreadsheet with sample and patient ID. We plan to release over 13,000 unannotated slides from the FCCC Corpus simultaneously with v1.0.0 of TUDP. Details of this release will also be discussed in this poster. Few digitally annotated databases of pathology samples like TUDP exist due to the extensive data collection and processing required. The breast corpus subset should be released by November 2021. By December 2021 we should also release the unannotated FCCC data. We are currently annotating urinary tract data as well. We expect to release about 5,600 processed TUH slides in this subset. We have an additional 53,000 unprocessed TUH slides digitized. Corpora of this size will stimulate the development of a new generation of deep learning technology. In clinical settings where resources are limited, an assistive diagnoses model could support pathologists’ workload and even help prioritize suspected cancerous cases. ACKNOWLEDGMENTS This material is supported by the National Science Foundation under grants nos. CNS-1726188 and 1925494. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. REFERENCES [1] N. Shawki et al., “The Temple University Digital Pathology Corpus,” in Signal Processing in Medicine and Biology: Emerging Trends in Research and Applications, 1st ed., I. Obeid, I. Selesnick, and J. Picone, Eds. New York City, New York, USA: Springer, 2020, pp. 67 104. https://www.springer.com/gp/book/9783030368432. [2] J. Picone, T. Farkas, I. Obeid, and Y. Persidsky, “MRI: High Performance Digital Pathology Using Big Data and Machine Learning.” Major Research Instrumentation (MRI), Division of Computer and Network Systems, Award No. 1726188, January 1, 2018 – December 31, 2021. https://www. isip.piconepress.com/projects/nsf_dpath/. [3] A. Gulati et al., “Conformer: Convolution-augmented Transformer for Speech Recognition,” in Proceedings of the Annual Conference of the International Speech Communication Association (INTERSPEECH), 2020, pp. 5036-5040. https://doi.org/10.21437/interspeech.2020-3015. [4] C.-J. Wu et al., “Machine Learning at Facebook: Understanding Inference at the Edge,” in Proceedings of the IEEE International Symposium on High Performance Computer Architecture (HPCA), 2019, pp. 331–344. https://ieeexplore.ieee.org/document/8675201. [5] I. Caswell and B. Liang, “Recent Advances in Google Translate,” Google AI Blog: The latest from Google Research, 2020. [Online]. Available: https://ai.googleblog.com/2020/06/recent-advances-in-google-translate.html. [Accessed: 01-Aug-2021]. [6] V. Khalkhali, N. Shawki, V. Shah, M. Golmohammadi, I. Obeid, and J. Picone, “Low Latency Real-Time Seizure Detection Using Transfer Deep Learning,” in Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium (SPMB), 2021, pp. 1 7. https://www.isip. piconepress.com/publications/conference_proceedings/2021/ieee_spmb/eeg_transfer_learning/. [7] J. Picone, T. Farkas, I. Obeid, and Y. Persidsky, “MRI: High Performance Digital Pathology Using Big Data and Machine Learning,” Philadelphia, Pennsylvania, USA, 2020. https://www.isip.piconepress.com/publications/reports/2020/nsf/mri_dpath/. [8] I. Hunt, S. Husain, J. Simons, I. Obeid, and J. Picone, “Recent Advances in the Temple University Digital Pathology Corpus,” in Proceedings of the IEEE Signal Processing in Medicine and Biology Symposium (SPMB), 2019, pp. 1–4. https://ieeexplore.ieee.org/document/9037859. [9] A. P. Martinez, C. Cohen, K. Z. Hanley, and X. (Bill) Li, “Estrogen Receptor and Cytokeratin 5 Are Reliable Markers to Separate Usual Ductal Hyperplasia From Atypical Ductal Hyperplasia and Low-Grade Ductal Carcinoma In Situ,” Arch. Pathol. Lab. Med., vol. 140, no. 7, pp. 686–689, Apr. 2016. https://doi.org/10.5858/arpa.2015-0238-OA.more » « less
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Abstract The IceCube Neutrino Observatory is a cubic kilometer neutrino detector located at the geographic South Pole designed to detect high-energy astrophysical neutrinos. To thoroughly understand the detected neutrinos and their properties, the detector response to signal and background has to be modeled using Monte Carlo techniques. An integral part of these studies are the optical properties of the ice the observatory is built into. The simulated propagation of individual photons from particles produced by neutrino interactions in the ice can be greatly accelerated using graphics processing units (GPUs). In this paper, we (a collaboration between NVIDIA and IceCube) reduced the propagation time per photon by a factor of up to 3 on the same GPU. We achieved this by porting the OpenCL parts of the program to CUDA and optimizing the performance. This involved careful analysis and multiple changes to the algorithm. We also ported the code to NVIDIA OptiX to handle the collision detection. The hand-tuned CUDA algorithm turned out to be faster than OptiX. It exploits detector geometry and only a small fraction of photons ever travel close to one of the detectors.
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he pervasive operation of customer drones, or small-scale unmanned aerial vehicles (UAVs), has raised serious concerns about their privacy threats to the public. In recent years, privacy invasion events caused by customer drones have been frequently reported. Given such a fact, timely detection of invading drones has become an emerging task. Existing solutions using active radar, video or acoustic sensors are usually too costly (especially for individuals) or exhibit various constraints (e.g., requiring visual line of sight). Recent research on drone detection with passive RF signals provides an opportunity for low-cost deployment of drone detectors on commodity wireless devices. However, the state of the arts in this direction rely on line-of-sight (LOS) RF signals, which makes them only work under very constrained conditions. The support of more common scenarios, i.e., non-line-of-sight (NLOS), is still missing for low-cost solutions. In this paper, we propose a novel detection system for privacy invasion caused by customer drone. Our system is featured with accurate NLOS detection with low-cost hardware (under $50). By exploring and validating the relationship between drone motions and RF signal under the NLOS condition, we find that RF signatures of drones are somewhat “amplified” by multipaths in NLOS. Based on this observation, we design a two-step solution which first classifies received RSS measurements into LOS and NLOS categories; deep learning is then used to extract the signatures and ultimately detect the drones. Our experimental results show that LOS and NLOS signals can be identified at accuracy rates of 98.4% and 96% respectively. Our drone detection rate for NLOS condition is above 97% with a system implemented using Raspberry PI 3 B+.more » « less
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We introduce a deep learning model for speech denoising, a long-standing challenge in audio analysis arising in numerous applications. Our approach is based on a key observation about human speech: there is often a short pause between each sentence or word. In a recorded speech signal, those pauses introduce a series of time periods during which only noise is present. We leverage these incidental silent intervals to learn a model for automatic speech denoising given only mono-channel audio. Detected silent intervals over time expose not just pure noise but its time-varying features, allowing the model to learn noise dynamics and suppress it from the speech signal. Experiments on multiple datasets confirm the pivotal role of silent interval detection for speech denoising, and our method outperforms several state-of-the-art denoising methods, including those that accept only audio input (like ours) and those that denoise based on audiovisual input (and hence require more information). We also show that our method enjoys excellent generalization properties, such as denoising spoken languages not seen during training.more » « less
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