Open Access Policy Deposits

Al Hossain, Forsad; Tonmoy, M; Nuvvula, Sri; Chapman, Brittany; Gupta, Rajesh; Lover, Andrew et al.: Syndromic surveillance of population-level COVID-19 burden with cough monitoring in a hospital emergency waiting room., 2024

Allaband, Celeste; Lingaraju, Amulya; Flores Ramos, Stephany; Kumar, Tanya; Javaheri, Haniyeh; Tiu, Maria D et al.: Time of sample collection is critical for the replicability of microbiome analyses, 2024

Almeida, Alexandra; Patton, Thomas; Conway, Mike; Gupta, Amarnath; Strathdee, Steffanie A; Bórquez, Annick: The Use of Natural Language Processing Methods in Reddit to Investigate Opioid Use: Scoping Review, 2024

Asgarinejad, Fatemeh; Yu, Xiaofan; Jiang, Danlin; Morris, Justin; Rosing, Tajana; Aksanli, Baris: Enhanced Noise-Resilient Pressure Mat System Based on Hyperdimensional Computing., 2024

Bailey, Regan; MacFarlane, Amanda; Field, Martha; Tagkopoulos, Ilias; Baranzini, Sergio; Edwards, Kristen et al.: Artificial intelligence in food and nutrition evidence: The challenges and opportunities., 2024

Balaban, Metin; Jiang, Yueyu; Zhu, Qiyun; McDonald, Daniel; Knight, Rob; Mirarab, Siavash: Generation of accurate, expandable phylogenomic trees with uDance, 2024

Baldi, Tommaso; Campos, Javier; Hawks, Ben; Ngadiuba, Jennifer; Tran, Nhan; Diaz, Daniel et al.: Reliable edge machine learning hardware for scientific applications, 2024

Bedmutha, Manas; Bascom, Emily; Sladek, Kimberly; Tobar, Kelly; Casanova-Perez, Reggie; Andreiu, Alexandra et al.: Artificial intelligence-generated feedback on social signals in patient-provider communication: technical performance, feedback usability, and impact., 2024

Brennan, Caitriona; Belda-Ferre, Pedro; Zuffa, Simone; Charron-Lamoureux, Vincent; Mohanty, Ipsita; Ackermann, Gail et al.: Clearing the plate: a strategic approach to mitigate well-to-well contamination in large-scale microbiome studies., 2024

Brennan, Caitriona; Chan, Kristina; Kumar, Tanya; Maissy, Erica; Brubaker, Linda; Dothard, Marisol I et al.: Harnessing the power within: engineering the microbiome for enhanced gynecologic health, 2024

Brown, Bianca; Williams, Allison; Sabey, Kate; Onserio, Aaron; Ewoi, John; Song, Se et al.: Social behaviour mediates the microbiome response to antibiotic treatment in a wild mammal., 2024

Burcham, Zachary; Belk, Aeriel; McGivern, Bridget; Bouslimani, Amina; Ghadermazi, Parsa; Martino, Cameron et al.: A conserved interdomain microbial network underpins cadaver decomposition despite environmental variables., 2024

Cao, Yadi; Zhao, Yidong; Li, Minchen; Yang, Yin; Choo, Jinhyun; Terzopoulos, Demetri et al.: Unstructured moving least squares material point methods: a stable kernel approach with continuous gradient reconstruction on general unstructured tessellations, 2024

Chen, Chen; Lifset, Ella T; Han, Yichen; Roy, Arkajyoti; Hogarth, Michael; Moore, Alison A et al.: How do Older Adults Set Up Voice Assistants? Lessons Learned from a Deployment Experience for Older Adults to Set Up Standalone Voice Assistants, 2024

Cummins, Breschine; Johnson, Kara; Schneider, John A; Del Vecchio, Natascha; Moshiri, Niema; Wertheim, Joel O et al.: Leveraging social networks for identification of people with HIV who are virally unsuppressed, 2024

Diakonikolas, Ilias; Kane, Daniel M; Kontonis, Vasilis; Liu, Sihan; Zarifis, Nikos: Super Non-singular Decompositions of Polynomials and Their Application to Robustly Learning Low-Degree PTFs, 2024

Diakonikolas, Ilias; Kane, Daniel M; Liu, Sihan: Testing Closeness of Multivariate Distributions via Ramsey Theory, 2024

Drewes, Colin; Weng, Olivia; Meza, Andres; Althoff, Alric; Kohlbrenner, David; Kastner, Ryan et al.: Pentimento: Data Remanence in Cloud FPGAs, 2024

Duan, Minxuan; Qian, Yinlong; Zhao, Lingyi; Zhou, Zihao; Rasheed, Zeeshan; Yu, Rose et al.: Back to Bayesics: Uncovering Human Mobility Distributions and Anomalies with an Integrated Statistical and Neural Framework, 2024

Gentry, Emily C; Collins, Stephanie L; Panitchpakdi, Morgan; Belda-Ferre, Pedro; Stewart, Allison K; Carrillo Terrazas, Marvic et al.: Reverse metabolomics for the discovery of chemical structures from humans, 2024

Goldhaber, Nicole; Jacobs, Marni; Laurent, Louise; Knight, Rob; Zhu, Wenhong; Pham, Dean et al.: Integrating clinical research into electronic health record workflows to support a learning health system., 2024

Grahnemo, Louise; Kambur, Oleg; Lahti, Leo; Jousilahti, Pekka; Niiranen, Teemu; Knight, Rob et al.: Associations between gut microbiota and incident fractures in the FINRISK cohort., 2024

Hopkins, Max; Kane, Daniel; Lovett, Shachar; Mahajan, Gaurav: Realizable Learning is All You Need, 2024

Ji, Daniel; Aboukhalil, Robert; Moshiri, Alexander: ViralWasm: a client-side user-friendly web application suite for viral genomics., 2024

Jiang, Yueyu; McDonald, Daniel; Perry, Daniela; Knight, Rob; Mirarab, Siavash: Scaling DEPP phylogenetic placement to ultra-large reference trees: a tree-aware ensemble approach., 2024

Jones, Derek; Zhang, Xiaohua; Bennion, Brian; Pinge, Sumukh; Xu, Weihong; Kang, Jaeyoung et al.: HDBind: encoding of molecular structure with hyperdimensional binary representations., 2024

Kane, Daniel M; Ostuni, Anthony; Wu, Kewen: Locality Bounds for Sampling Hamming Slices, 2024

Kane, Daniel M; Diakonikolas, Ilias; Xiao, Hanshen; Liu, Sihan: Online Robust Mean Estimation, 2024

Keehner, Jocelyn; Abeles, Shira R; Longhurst, Christopher A; Horton, Lucy E; Myers, Frank E; Riggs-Rodriguez, Lindsay et al.: Integrated Genomic and Social Network Analyses of SARS-CoV-2 Transmission in the Healthcare Setting, 2024

Keremoğlu, Eda; Weidmann, Nils; Gamero-Garrido, Alexander; Carisimo, Esteban; Dainotti, Alberto; Snoeren, Alex: Network topology facilitates internet traffic control in autocracies., 2024

Kim, Hyun; Gerwick, William; Cottrell, Garrison; Gahl, Martha; Glukhov, Evgenia: PECAN Predicts Patterns of Cancer Cell Cytostatic Activity of Natural Products Using Deep Learning., 2024

Kong, JungHo; Zhao, Xiaoyu; Singhal, Akshat; Park, Sungjoon; Bachelder, Robin; Shen, Jeanne et al.: Prediction of immunotherapy response using mutations to cancer protein assemblies, 2024

Koponen, Kari; Kambur, Oleg; Joseph, Bijoy; Ruuskanen, Matti; Jousilahti, Pekka; Salido, Rodolfo et al.: Role of Gut Microbiota in Statin-Associated New-Onset Diabetes-A Cross-Sectional and Prospective Analysis of the FINRISK 2002 Cohort., 2024

Kumar, Tanya; Bryant, MacKenzie; Cantrell, Kalen; Song, Se; McDonald, Daniel; Tubb, Helena et al.: Effects of variation in sample storage conditions and swab order on 16S vaginal microbiome analyses., 2024

Lee, Mikyeong; Kaul, Abhishek; Ward, James; Zhu, Qiyun; Richards, Marie; Wang, Ziyue et al.: House dust metagenome and pulmonary function in a US farming population., 2024

Lei, Ming; Zhao, Junxiang; Sahan, Ayse; Hu, Jie; Zhou, Junxiao; Lee, Hongki et al.: Deep Learning Assisted Plasmonic Dark-Field Microscopy for Super-Resolution Label-Free Imaging., 2024

Li, Luyi; Yavarzadeh, Hosein; Tullsen, Dean M: Indirector: High-Precision Branch Target Injection Attacks Exploiting the Indirect Branch Predictor., 2024

Lin, Miin; Jo, Se-Young; Luebeck, Jens; Chang, Howard; Wu, Sihan; Mischel, Paul et al.: Transcriptional immune suppression and up-regulation of double-stranded DNA damage and repair repertoires in ecDNA-containing tumors., 2024

Linnehan, Barbara; Kodera, Sho; Allard, Sarah; Brodie, Erin; Allaband, Celeste; Lutz, Holly et al.: Evaluation of the safety and efficacy of fecal microbiota transplantations in bottlenose dolphins (Tursiops truncatus) using metagenomic sequencing., 2024

Liu, Yang; Ritchie, Scott; Teo, Shu; Ruuskanen, Matti; Kambur, Oleg; Zhu, Qiyun et al.: Integration of polygenic and gut metagenomic risk prediction for common diseases., 2024

Mahar, Suyash; Shen, Mingyao; Smith, TJ; Izraelevitz, Joseph; Swanson, Steven: Puddles: Application-Independent Recovery and Location-Independent Data for Persistent Memory, 2024

Martinelli, Filippo; Heinken, Almut; Henning, Ann-Kristin; Ulmer, Maria; Hensen, Tim; González, Antonio et al.: Whole-body metabolic modelling reveals microbiome and genomic interactions on reduced urine formate levels in Alzheimers disease., 2024

Maukonen, Mirkka; Koponen, Kari; Havulinna, Aki; Kaartinen, Niina; Niiranen, Teemu; Méric, Guillaume et al.: Associations of plant-based foods, red and processed meat, and dairy with gut microbiome in Finnish adults., 2024

McDonald, Daniel; Jiang, Yueyu; Balaban, Metin; Cantrell, Kalen; Zhu, Qiyun; Gonzalez, Antonio et al.: Greengenes2 unifies microbial data in a single reference tree, 2024

Mei, Zhendong; Wang, Fenglei; Bhosle, Amrisha; Dong, Danyue; Mehta, Raaj; Ghazi, Andrew et al.: Strain-specific gut microbial signatures in type 2 diabetes identified in a cross-cohort analysis of 8,117 metagenomes., 2024

Nonejuie, Poochit; Wilantho, Alisa; McDonald, Daniel; Htoo, Htut; Chalerm, Jenjira; Tripathi, Anupriya et al.: Differential gut microbiota composition in β-Thalassemia patients and its correlation with iron overload., 2024

Okamoto, Faith; Chitre, Apurva S; Missfeldt Sanches, Thiago; Chen, Denghui; Munro, Daniel; Aron, Allegra T et al.: Y and mitochondrial chromosomes in the heterogeneous stock rat population, 2024

Oles, Renee E; Terrazas, Marvic Carrillo; Loomis, Luke R; Hsu, Chia-Yun; Tribelhorn, Caitlin; Belda-Ferre, Pedro et al.: Pangenome comparison of Bacteroides fragilis genomospecies unveils genetic diversity and ecological insights, 2024

Pandey, Sonalisa; McCoy, Sara Safa; Stobdan, Tsering; Sahoo, Debashis: Quantitative mRNA expression measurement at home, 2024

Park, Sungjoon; Kong, JungHo; Bachelder, Robin; Ideker, Trey; Singhal, Akshat; Zhao, Xiaoyu: Cancer Mutations Converge on a Collection of Protein Assemblies to Predict Resistance to Replication Stress., 2024