Abstract is missing.
- An Efficient, Scalable and Exact Representation of High-Dimensional Color Information Enabled via de Bruijn Graph SearchFatemeh Almodaresi, Prashant Pandey, Michael Ferdman, Rob Johnson, Robert Patro. 1-18 [doi]
- Identifying Clinical Terms in Free-Text Notes Using Ontology-Guided Machine LearningAryan Arbabi, David R. Adams, Sanja Fidler, Michael Brudno. 19-34 [doi]
- ModHMM: A Modular Supra-Bayesian Genome Segmentation MethodPhilipp Benner, Martin Vingron. 35-50 [doi]
- Learning Robust Multi-label Sample Specific Distances for Identifying HIV-1 Drug ResistanceLodewijk Brand, Xue Yang, Kai Liu, Saad El Beleidy, Hua Wang, Hao Zhang 0011. 51-67 [doi]
- MethCP: Differentially Methylated Region Detection with Change Point ModelsBoying Gong, Elizabeth Purdom. 68-84 [doi]
- On the Complexity of Sequence to Graph AlignmentChirag Jain, Haowen Zhang, Yu Gao, Srinivas Aluru. 85-100 [doi]
- Minimization-Aware Recursive K^* K ∗ ( MARK^* MARK ∗ ): A Novel, Provable Algorithm that Accelerates Ensemble-Based Protein Design and Provably Approximates the Energy LandscapeJonathan D. Jou, Graham T. Holt, Anna U. Lowegard, Bruce Randall Donald. 101-119 [doi]
- Sparse Binary Relation Representations for Genome Graph AnnotationMikhail Karasikov, Harun Mustafa, Amir Joudaki, Sara Javadzadeh-No, Gunnar Rätsch, André Kahles. 120-135 [doi]
- How Many Subpopulations Is Too Many? Exponential Lower Bounds for Inferring Population HistoriesYounhun Kim, Frederic Koehler, Ankur Moitra, Elchanan Mossel, Govind Ramnarayan. 136-157 [doi]
- Efficient Construction of a Complete Index for Pan-Genomics Read AlignmentAlan Kuhnle, Taher Mun, Christina Boucher, Travis Gagie, Ben Langmead, Giovanni Manzini. 158-173 [doi]
- Tumor Copy Number Deconvolution Integrating Bulk and Single-Cell Sequencing DataHaoyun Lei, Bochuan Lyu, E. Michael Gertz, Alejandro A. Schäffer, Xulian Shi, Kui Wu, Guibo Li, Liqin Xu, Yong Hou, Michael Dean, Russell Schwartz. 174-189 [doi]
- OMGS: Optical Map-Based Genome ScaffoldingWeihua Pan, Tao Jiang 0001, Stefano Lonardi. 190-207 [doi]
- Fast Approximation of Frequent k-mers and Applications to MetagenomicsLeonardo Pellegrina, Cinzia Pizzi, Fabio Vandin. 208-226 [doi]
- De Novo Clustering of Long-Read Transcriptome Data Using a Greedy, Quality-Value Based AlgorithmKristoffer Sahlin, Paul Medvedev. 227-242 [doi]
- A Sticky Multinomial Mixture Model of Strand-Coordinated Mutational Processes in CancerItay Sason, Damian Wójtowicz, Welles Robinson, Mark D. M. Leiserson, Teresa M. Przytycka, Roded Sharan. 243-255 [doi]
- Disentangled Representations of Cellular IdentityZiheng Wang, Grace H. T. Yeo, Richard Sherwood, David Gifford 0001. 256-271 [doi]
- RENET: A Deep Learning Approach for Extracting Gene-Disease Associations from LiteratureYe Wu, Ruibang Luo, Henry C. M. Leung, Hing-Fung Ting, Tak Wah Lam. 272-284 [doi]
- APPLES: Fast Distance-Based Phylogenetic PlacementMetin Balaban, Shahab Sarmashghi, Siavash Mirarab. 287-288 [doi]
- De Novo Peptide Sequencing Reveals a Vast Cyclopeptidome in Human Gut and Other EnvironmentsBahar Behsaz, Hosein Mohimani, Alexey A. Gurevich, Andrey D. Prjibelski, Mark F. Fisher, Larry Smarr, Pieter C. Dorrestein, Joshua S. Mylne, Pavel A. Pevzner. 289-291 [doi]
- Biological Sequence Modeling with Convolutional Kernel NetworksDexiong Chen, Laurent Jacob, Julien Mairal. 292-293 [doi]
- Dynamic Pseudo-time Warping of Complex Single-Cell TrajectoriesVan Hoan Do, Mislav Blazevic, Pablo Monteagudo, Luka Borozan, Khaled M. Elbassioni, Sören Laue, Francisca Rojas Ringeling, Domagoj Matijevic, Stefan Canzar. 294-296 [doi]
- netNMF-sc: A Network Regularization Algorithm for Dimensionality Reduction and Imputation of Single-Cell Expression DataRebecca Elyanow, Bianca Dumitrascu, Barbara E. Engelhardt, Benjamin J. Raphael. 297-298 [doi]
- Geometric Sketching of Single-Cell Data Preserves Transcriptional StructureBrian Hie, Hyunghoon Cho, Benjamin Demeo, Bryan Bryson, Bonnie Berger. 299-301 [doi]
- Sketching Algorithms for Genomic Data Analysis and Querying in a Secure EnclaveCan Kockan, Kaiyuan Zhu, Natnatee Dokmai, Nikolai Karpov, M. Oguzhan Kulekci, David P. Woodruff, Süleyman Cenk Sahinalp. 302-304 [doi]
- Mitigating Data Scarcity in Protein Binding Prediction Using Meta-LearningYunan Luo, Jianzhu Ma, Xiaoming Zhao, Yufeng Su, Yang Liu 0097, Trey Ideker, Jian Peng 0001. 305-307 [doi]
- Efficient Estimation and Applications of Cross-Validated Genetic PredictionsJoel Mefford, Danny S. Park, Zhili Zheng, Arthur Ko, Mika Ala-Korpela, Markku Laakso, Paivi Pajukanta, Jian Yang, John Witte, Noah Zaitlen. 308-310 [doi]
- Inferring Tumor Evolution from Longitudinal SamplesMatthew A. Myers, Gryte Satas, Benjamin J. Raphael. 311 [doi]
- Scalable Multi-component Linear Mixed Models with Application to SNP Heritability EstimationAli Pazokitoroudi, Yue Wu, Kathryn S. Burch, Kangcheng Hou, Bogdan Pasaniuc, Sriram Sankararaman. 312-313 [doi]
- A Note on Computing Interval Overlap StatisticsShahab Sarmashghi, Vineet Bafna. 314-315 [doi]
- Distinguishing Biological from Technical Sources of Variation Using a Combination of Methylation DatasetsMike Thompson, Zeyuan Johnson Chen, Elior Rahmani, Eran Halperin. 316-317 [doi]
- GRep: Gene Set Representation via Gaussian EmbeddingSheng Wang, Emily Flynn, Russ B. Altman. 318-319 [doi]
- Accurate Sub-population Detection and Mapping Across Single Cell Experiments with PopCornYijie Wang, Jan Hoinka, Teresa M. Przytycka. 320-321 [doi]
- Fast Estimation of Genetic Correlation for Biobank-Scale DataYue Wu, Anna Yaschenko, Mohammadreza Hajy Heydary, Sriram Sankararaman. 322-323 [doi]
- stance-Based Protein Folding Powered by Deep LearningJinbo Xu. 324-325 [doi]
- Comparing 3D Genome Organization in Multiple Species Using Phylo-HMRFYang Yang, Yang Zhang, Bing Ren, Jesse R. Dixon, Jian Ma 0004. 326-327 [doi]
- Towards a Post-clustering Test for Differential ExpressionJesse M. Zhang, Govinda M. Kamath, David N. Tse. 328-329 [doi]
- AdaFDR: A Fast, Powerful and Covariate-Adaptive Approach to Multiple Hypothesis TestingMartin J. Zhang, Fei Xia, James Zou. 330-333 [doi]