CUBIC Dataverse

The Carleton University Biomedical Informatics Collaboratory (CUBIC) DataVerse

PI: Dr. James Green

This DataVerse repository contains the publicly available data sets used by the Dr. James Green lab in support of the various research projects and academic initiatives.

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1 to 10 of 16 Results

Species-specific microRNA discovery and target prediction in the Soybean Cyst Nematode Sep 25, 2023 Ajila, Victoria; Colley, Laura; Thibouthot-Ste-Croix, Dave; Nissan, Nour; Cober, Elroy; Mimee, Benjamin; Samanfar,Bahram; Green, James, 2022, "Species-specific microRNA discovery and target prediction in the Soybean Cyst Nematode", https://doi.org/10.5683/SP3/30DEXA, Borealis, V5, UNF:6:x3nja3a5SMWv7ALIR11e0A== [fileUNF] The soybean cyst nematode (SCN) is a devastating pathogen for economic and food security considerations. Although the SCN genome has recently been sequenced, microRNA (miRNA) has not been systematically explored and reported. This paper describes the development of a species-spec...
Simultaneously-collected Multimodal Mannequin Lying Pose (SMaL) Jun 2, 2023 Kyrollos, Daniel, 2022, "Simultaneously-collected Multimodal Mannequin Lying Pose (SMaL)", https://doi.org/10.5683/SP3/C8HGRU, Borealis, V2 Simultaneously Collected Multimodal Mannequin Lying Pose (SMaL) dataset is an infant pose dataset based on a posable mannequin. The SMaL dataset contains a set of 300 unique poses under three cover conditions using three sensor modalities: color imaging, depth sensing, and pressu...
Iqaluit GSV Images with Electrical Infrastructure Annotation Masks May 2, 2023 Singh, Arka; Dick, Kevin; Green, James R, 2023, "Iqaluit GSV Images with Electrical Infrastructure Annotation Masks", https://doi.org/10.5683/SP3/DHWBLK, Borealis, V1 718 GSV Images collected from the Iqaluit Region of the Canadian territory of Nunavut, using S3 framework and annotated with polygonal masks for multiple electrical equipment classes
Southern Ontario GSV Images with Electrical Infrastructure Annotation Masks May 2, 2023 Singh, Arka; Dick, Kevin; Green, James R, 2023, "Southern Ontario GSV Images with Electrical Infrastructure Annotation Masks", https://doi.org/10.5683/SP3/KNC8MG, Borealis, V1 643 GSV Images collected from the Southern Ontario Region using S2 framework and annotated with polygonal masks for multiple electrical equipment classes
Critical Electrical Infrastructure Annotations from Google Street View Images Jan 16, 2023 - Carleton University Dataverse Collection Souley Dosso, Yasmina, 2023, "Critical Electrical Infrastructure Annotations from Google Street View Images", https://doi.org/10.5683/SP3/7CVJ7D, Borealis, V1 Annotations of critical electrical infrastructure from 2,221 Google Street View (GSV) images are provided here. Wires and poles observed in the scene were annotated by drawing lines over the wires and polygons encapsulating the poles, and creating a binary mask. The collected GSV...
P-TarPMir: A Web server for accurate plant-specific miRNA target prediction Sep 14, 2022 Ajila, Victoria; Colley, Laura; Ste-Croix, Dave T.; Nissan, Nour; Golshani, Ashkan; Cober, Elroy R.; Mimee, Benjamin; Samanfar, Bahram; Green, James R., 2022, "P-TarPMir: A Web server for accurate plant-specific miRNA target prediction", https://doi.org/10.5683/SP3/LOD4E3, Borealis, V1, UNF:6:WzrSROfb71gO8Tj9+h7Bwg== [fileUNF] microRNAs (miRNAs) are small non-coding ribonucleic acids that post-transcriptionally regulate gene expression through the targeting of messenger RNA (mRNAs). Most miRNA target predictors have focused on animal species and prediction performance drops substantially when applied t...
BioGRID Organism Binary Protein-Protein Interactions Apr 6, 2022 Arezza, Eric, 2021, "BioGRID Organism Binary Protein-Protein Interactions", https://doi.org/10.5683/SP2/8WBMMM, Borealis, V3, UNF:6:J0VKKBg2QJQ0Pj89boN6jA== [fileUNF] Balanced datasets compiled from BioGRID Release 4.4.198 (May 25, 2021) organism data. Provides new benchmarks containing recent data to avoid discrepancies found in older benchmark datasets. Filtering approach: Only physical interactions with high/low throughput are included with...
Streetlearn Intra-City Geolocation Dataset Mar 1, 2022 Dick, Kevin; Joshua B. Tanner; James R. Green, 2022, "Streetlearn Intra-City Geolocation Dataset", https://doi.org/10.5683/SP3/DPIIEH, Borealis, V1, UNF:6:XVHgu2i/mlxYLZjKjc09mw== [fileUNF] We provide a complete set of SIFT keypoint descriptors (4,096 keypoints per image) for the complete Streetlearn dataset coverage of Manhattan and Pittsburgh. This highly densely sampled Streetlearn dataset of imagery was used to develop an accurate inter-city predictor and then e...
Fully Annotated Gas Prices of America Dataset for Multi-Metric Extraction in the Wild Jan 23, 2022 - Gas Prices of America (GPA) Dataverse Kevin Dick; Joshua B. Tanner; François Charih; James R. Green, 2022, "Fully Annotated Gas Prices of America Dataset for Multi-Metric Extraction in the Wild", https://doi.org/10.5683/SP3/NRGMMB, Borealis, V2 The fully annotated Gas Prices of America Dataset for Multi-Metric Extraction (GPA4MME) is a large-scale dataset of metric-specific annotations for gas prices and gas signs obtained from Google Streetview throughout the 49 mainland United States of America. The annotations greatl...
RPmirDIP Predictions of ~49 Million miRNA-Gene Pairs (Trained on mirDIP v4.1) Nov 11, 2020 Kyrollos, Daniel G.; Dick, Kevin; Green, James R., 2020, "RPmirDIP Predictions of ~49 Million miRNA-Gene Pairs (Trained on mirDIP v4.1)", https://doi.org/10.5683/SP2/L2DUFT, Borealis, V1 Brief Description The RPmirDIP predictor originally used to generate ~6 million miRNA-Gene pair predictions was retrained on the mirDIP v4.1 and was used to re-score all available miRNA-mRNA pairs from the mirDIP database to identify novel putative interactions. We release, here,...

Species-specific microRNA discovery and target prediction in the Soybean Cyst Nematode

Sep 25, 2023

Ajila, Victoria; Colley, Laura; Thibouthot-Ste-Croix, Dave; Nissan, Nour; Cober, Elroy; Mimee, Benjamin; Samanfar,Bahram; Green, James, 2022, "Species-specific microRNA discovery and target prediction in the Soybean Cyst Nematode", https://doi.org/10.5683/SP3/30DEXA, Borealis, V5, UNF:6:x3nja3a5SMWv7ALIR11e0A== [fileUNF]

The soybean cyst nematode (SCN) is a devastating pathogen for economic and food security considerations. Although the SCN genome has recently been sequenced, microRNA (miRNA) has not been systematically explored and reported. This paper describes the development of a species-spec...

Simultaneously-collected Multimodal Mannequin Lying Pose (SMaL)

Jun 2, 2023

Kyrollos, Daniel, 2022, "Simultaneously-collected Multimodal Mannequin Lying Pose (SMaL)", https://doi.org/10.5683/SP3/C8HGRU, Borealis, V2

Simultaneously Collected Multimodal Mannequin Lying Pose (SMaL) dataset is an infant pose dataset based on a posable mannequin. The SMaL dataset contains a set of 300 unique poses under three cover conditions using three sensor modalities: color imaging, depth sensing, and pressu...

Iqaluit GSV Images with Electrical Infrastructure Annotation Masks

May 2, 2023

Singh, Arka; Dick, Kevin; Green, James R, 2023, "Iqaluit GSV Images with Electrical Infrastructure Annotation Masks", https://doi.org/10.5683/SP3/DHWBLK, Borealis, V1

718 GSV Images collected from the Iqaluit Region of the Canadian territory of Nunavut, using S3 framework and annotated with polygonal masks for multiple electrical equipment classes

Southern Ontario GSV Images with Electrical Infrastructure Annotation Masks

May 2, 2023

Singh, Arka; Dick, Kevin; Green, James R, 2023, "Southern Ontario GSV Images with Electrical Infrastructure Annotation Masks", https://doi.org/10.5683/SP3/KNC8MG, Borealis, V1

643 GSV Images collected from the Southern Ontario Region using S2 framework and annotated with polygonal masks for multiple electrical equipment classes

Critical Electrical Infrastructure Annotations from Google Street View Images

Jan 16, 2023 - Carleton University Dataverse Collection

Souley Dosso, Yasmina, 2023, "Critical Electrical Infrastructure Annotations from Google Street View Images", https://doi.org/10.5683/SP3/7CVJ7D, Borealis, V1

Annotations of critical electrical infrastructure from 2,221 Google Street View (GSV) images are provided here. Wires and poles observed in the scene were annotated by drawing lines over the wires and polygons encapsulating the poles, and creating a binary mask. The collected GSV...

P-TarPMir: A Web server for accurate plant-specific miRNA target prediction

Sep 14, 2022

Ajila, Victoria; Colley, Laura; Ste-Croix, Dave T.; Nissan, Nour; Golshani, Ashkan; Cober, Elroy R.; Mimee, Benjamin; Samanfar, Bahram; Green, James R., 2022, "P-TarPMir: A Web server for accurate plant-specific miRNA target prediction", https://doi.org/10.5683/SP3/LOD4E3, Borealis, V1, UNF:6:WzrSROfb71gO8Tj9+h7Bwg== [fileUNF]

microRNAs (miRNAs) are small non-coding ribonucleic acids that post-transcriptionally regulate gene expression through the targeting of messenger RNA (mRNAs). Most miRNA target predictors have focused on animal species and prediction performance drops substantially when applied t...

BioGRID Organism Binary Protein-Protein Interactions

Apr 6, 2022

Arezza, Eric, 2021, "BioGRID Organism Binary Protein-Protein Interactions", https://doi.org/10.5683/SP2/8WBMMM, Borealis, V3, UNF:6:J0VKKBg2QJQ0Pj89boN6jA== [fileUNF]

Balanced datasets compiled from BioGRID Release 4.4.198 (May 25, 2021) organism data. Provides new benchmarks containing recent data to avoid discrepancies found in older benchmark datasets. Filtering approach: Only physical interactions with high/low throughput are included with...

Streetlearn Intra-City Geolocation Dataset

Mar 1, 2022

Dick, Kevin; Joshua B. Tanner; James R. Green, 2022, "Streetlearn Intra-City Geolocation Dataset", https://doi.org/10.5683/SP3/DPIIEH, Borealis, V1, UNF:6:XVHgu2i/mlxYLZjKjc09mw== [fileUNF]

We provide a complete set of SIFT keypoint descriptors (4,096 keypoints per image) for the complete Streetlearn dataset coverage of Manhattan and Pittsburgh. This highly densely sampled Streetlearn dataset of imagery was used to develop an accurate inter-city predictor and then e...

Fully Annotated Gas Prices of America Dataset for Multi-Metric Extraction in the Wild

Jan 23, 2022 - Gas Prices of America (GPA) Dataverse

Kevin Dick; Joshua B. Tanner; François Charih; James R. Green, 2022, "Fully Annotated Gas Prices of America Dataset for Multi-Metric Extraction in the Wild", https://doi.org/10.5683/SP3/NRGMMB, Borealis, V2

The fully annotated Gas Prices of America Dataset for Multi-Metric Extraction (GPA4MME) is a large-scale dataset of metric-specific annotations for gas prices and gas signs obtained from Google Streetview throughout the 49 mainland United States of America. The annotations greatl...

RPmirDIP Predictions of ~49 Million miRNA-Gene Pairs (Trained on mirDIP v4.1)

Nov 11, 2020

Kyrollos, Daniel G.; Dick, Kevin; Green, James R., 2020, "RPmirDIP Predictions of ~49 Million miRNA-Gene Pairs (Trained on mirDIP v4.1)", https://doi.org/10.5683/SP2/L2DUFT, Borealis, V1

Brief Description The RPmirDIP predictor originally used to generate ~6 million miRNA-Gene pair predictions was retrained on the mirDIP v4.1 and was used to re-score all available miRNA-mRNA pairs from the mirDIP database to identify novel putative interactions. We release, here,...

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