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22nd RECOMB 2018: Paris, France
- Benjamin J. Raphael:
Research in Computational Molecular Biology - 22nd Annual International Conference, RECOMB 2018, Paris, France, April 21-24, 2018, Proceedings. Lecture Notes in Computer Science 10812, Springer 2018, ISBN 978-3-319-89928-2 - Anton Bankevich, Pavel A. Pevzner:
Long Reads Enable Accurate Estimates of Complexity of Metagenomes. 1-20 - Shounak Chakraborty, Stefan Canzar
, Tobias Marschall
Chromatyping: Reconstructing Nucleosome Profiles from NOMe Sequencing Data. 21-36 - Ali Ebrahimpour Boroojeny, Akash Shrestha, Ali Sharifi-Zarchi, Suzanne Renick Gallagher, Süleyman Cenk Sahinalp, Hamidreza Chitsaz:
GTED: Graph Traversal Edit Distance. 37-53 - Cyril Galitzine, Pierre M. Jean Beltran, Ileana M. Cristea, Olga Vitek:
Statistical Inference of Peroxisome Dynamics. 54-74 - Franziska Görtler, Stefan Solbrig, Tilo Wettig, Peter J. Oefner, Rainer Spang, Michael Altenbuchinger
Loss-Function Learning for Digital Tissue Deconvolution. 75-89 - Tyler A. Joseph, Itsik Pe'er
Inference of Population Structure from Ancient DNA. 90-104 - Anna Kuosmanen
Using Minimum Path Cover to Boost Dynamic Programming on DAGs: Co-linear Chaining Extended. 105-121 - Gary Larson, Jeffrey L. Thorne, Scott C. Schmidler
Modeling Dependence in Evolutionary Inference for Proteins. 122-137 - Sujun Li, Alex DeCourcy, Haixu Tang
Constrained De Novo Sequencing of neo-Epitope Peptides Using Tandem Mass Spectrometry. 138-153 - Yaron Orenstein
Reverse de Bruijn: Utilizing Reverse Peptide Synthesis to Cover All Amino Acid k-mers. 154-166 - Sebastien Roch, Kun-Chieh Wang:
Circular Networks from Distorted Metrics. 167-176 - Antoine Soulé
A Nested 2-Level Cross-Validation Ensemble Learning Pipeline Suggests a Negative Pressure Against Crosstalk snoRNA-mRNA Interactions in Saccharomyces Cerevisae. 177-193 - Yuriy Sverchkov
Context-Specific Nested Effects Models. 194-210 - Sharma V. Thankachan, Chaitanya Aluru, Sriram P. Chockalingam, Srinivas Aluru:
Algorithmic Framework for Approximate Matching Under Bounded Edits with Applications to Sequence Analysis. 211-224 - Zhemin Zhou
Accurate Reconstruction of Microbial Strains from Metagenomic Sequencing Using Representative Reference Genomes. 225-240
Short Papers
- Mehrdad Bakhtiari, Sharona Shleizer-Burko, Melissa Gymrek, Vikas Bansal, Vineet Bafna:
Targeted Genotyping of Variable Number Tandem Repeats with AdVNTR. 243-244 - Tristan Bepler, Andrew Morin, Alex J. Noble, Julia Brasch, Lawrence Shapiro, Bonnie Berger:
Positive-Unlabeled Convolutional Neural Networks for Particle Picking in Cryo-electron Micrographs. 245-247 - Édouard Bonnet, Pawel Rzazewski, Florian Sikora:
Designing RNA Secondary Structures Is Hard. 248-250 - Hyunghoon Cho, Bonnie Berger, Jian Peng:
Generalizable Visualization of Mega-Scale Single-Cell Data. 251-253 - Ghislain Durif, Laurent Modolo, Jeff E. Mold, Sophie Lambert-Lacroix, Franck Picard:
Probabilistic Count Matrix Factorization for Single Cell Expression Data Analysis. 254-255 - Stefan Hammer, Yann Ponty, Wei Wang, Sebastian Will:
Fixed-Parameter Tractable Sampling for RNA Design with Multiple Target Structures. 256-258 - Linh Huynh, Fereydoun Hormozdiari:
Contribution of Structural Variation to Genome Structure: TAD Fusion Discovery and Ranking. 259-260 - Mikhail Kolmogorov, Jeffrey Yuan, Yu Lin, Pavel A. Pevzner:
Assembly of Long Error-Prone Reads Using Repeat Graphs. 261-262 - Mark D. M. Leiserson, Jason Fan, Anthony Cannistra, Inbar Fried, Tim Lim, Thomas Schaffner, Mark Crovella, Benjamin J. Hescott:
A Multi-species Functional Embedding Integrating Sequence and Network Structure. 263-265 - Yunan Luo, Jianzhu Ma, Yang Liu, Qing Ye, Trey Ideker, Jian Peng:
Deciphering Signaling Specificity with Deep Neural Networks. 266-268 - Salem Malikic, Katharina Jahn, Jack Kuipers, Süleyman Cenk Sahinalp, Niko Beerenwinkel:
Integrative Inference of Subclonal Tumour Evolution from Single-Cell and Bulk Sequencing Data. 269-270 - Prashant Pandey, Fatemeh Almodaresi, Michael A. Bender, Michael Ferdman, Rob Johnson, Rob Patro:
Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index. 271-273 - Elior Rahmani, Regev Schweiger, Saharon Rosset, Sriram Sankararaman, Eran Halperin:
Tensor Composition Analysis Detects Cell-Type Specific Associations in Epigenetic Studies. 274-275 - Shahab Sarmashghi, Kristine Bohmann, M. Thomas P. Gilbert, Vineet Bafna, Siavash Mirarab:
Assembly-Free and Alignment-Free Sample Identification Using Genome Skims. 276-277 - Rebecca Sarto Basso, Dorit S. Hochbaum, Fabio Vandin:
Efficient Algorithms to Discover Alterations with Complementary Functional Association in Cancer. 278-279 - Ariya Shajii, Ibrahim Numanagic, Bonnie Berger:
Latent Variable Model for Aligning Barcoded Short-Reads Improves Downstream Analyses. 280-282 - Dana Silverbush, Simona Cristea, Gali Yanovich, Tamar Geiger, Niko Beerenwinkel, Roded Sharan:
ModulOmics: Integrating Multi-Omics Data to Identify Cancer Driver Modules. 283-284 - Jochen Singer, Jack Kuipers, Katharina Jahn, Niko Beerenwinkel:
SCIΦ: Single-Cell Mutation Identification via Phylogenetic Inference. 285-286 - Yijie Wang, Jan Hoinka, Piotr Swiderski, Teresa M. Przytycka:
AptaBlocks: Accelerating the Design of RNA-Based Drug Delivery Systems. 287-288 - Yue Wu, Eleazar Eskin, Sriram Sankararaman:
A Unifying Framework for Summary Statistic Imputation. 289-290 - Naomi Yamada, William K. M. Lai, Nina Farrell, B. Franklin Pugh, Shaun Mahony:
Characterizing Protein-DNA Binding Event Subtypes in ChIP-Exo Data. 291-292 - Yang Yang, Quanquan Gu, Takayo Sasaki, Julianna Crivello, Rachel O'Neill, David M. Gilbert, Jian Ma:
Continuous-Trait Probabilistic Model for Comparing Multi-species Functional Genomic Data. 293-294 - Tianming Zhou, Sheng Wang, Jinbo Xu:
Deep Learning Reveals Many More Inter-protein Residue-Residue Contacts than Direct Coupling Analysis. 295-296
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