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Publication search results
found 779 matches
- 2023
- Qi Wang, Michael Nute, Todd J. Treangen:
Bakdrive: identifying a minimum set of bacterial species driving interactions across multiple microbial communities. Bioinform. 39(Supplement-1): 47-56 (2023) - Zeeshan Abbas, Mobeen Ur Rehman, Hilal Tayara, Kil To Chong:
ORI-Explorer: a unified cell-specific tool for origin of replication sites prediction by feature fusion. Bioinform. 39(10) (2023) - Abbi Abdel-Rehim, Oghenejokpeme I. Orhobor, Hang Lou, Hao Ni, Ross D. King:
Protein-ligand binding affinity prediction exploiting sequence constituent homology. Bioinform. 39(8) (2023) - Dhoha Abid, Michael R. Brent:
NetProphet 3: a machine learning framework for transcription factor network mapping and multi-omics integration. Bioinform. 39(2) (2023) - Abin Abraham, Abigail L. Labella, Mary Lauren Benton, Antonis Rokas, John A. Capra:
GSEL: a fast, flexible python package for detecting signatures of diverse evolutionary forces on genomic regions. Bioinform. 39(1) (2023) - Michael F. Adamer, Eljas Roellin, Lucie Bourguignon, Karsten M. Borgwardt:
SIMBSIG: similarity search and clustering for biobank-scale data. Bioinform. 39(1) (2023) - Aman Agarwal, Li Chen:
DeepPHiC: predicting promoter-centered chromatin interactions using a novel deep learning approach. Bioinform. 39(1) (2023) - Aman Agarwal, Fengdi Zhao, Yuchao Jiang, Li Chen:
TIVAN-indel: a computational framework for annotating and predicting non-coding regulatory small insertions and deletions. Bioinform. 39(2) (2023) - Quim Aguado-Puig, Max Doblas, Christos Matzoros, Antonio Espinosa, Juan Carlos Moure, Santiago Marco-Sola, Miquel Moretó:
WFA-GPU: gap-affine pairwise read-alignment using GPUs. Bioinform. 39(12) (2023) - Longendri Aguilera-Mendoza, Sebastián Ayala-Ruano, Felix Martinez-Rios, Edgar Chávez, César R. García-Jacas, Carlos A. Brizuela, Yovani Marrero-Ponce:
StarPep Toolbox: an open-source software to assist chemical space analysis of bioactive peptides and their functions using complex networks. Bioinform. 39(8) (2023) - Emad Alamoudi, Yannik Schälte, Robert Müller, Jörn Starruß, Nils Bundgaard, Frederik Graw, Lutz Brusch, Jan Hasenauer:
FitMultiCell: simulating and parameterizing computational models of multi-scale and multi-cellular processes. Bioinform. 39(11) (2023) - Jarno N. Alanko, Jaakko Vuohtoniemi, Tommi Mäklin, Simon J. Puglisi:
Themisto: a scalable colored k-mer index for sensitive pseudoalignment against hundreds of thousands of bacterial genomes. Bioinform. 39(Supplement-1): 260-269 (2023) - Mercè Alemany-Chavarria, Jaime Rodríguez-Guerra, Jean-Didier Maréchal:
TALAIA: a 3D visual dictionary for protein structures. Bioinform. 39(8) (2023) - Fabricio Almeida-Silva, Tao Zhao, Kristian K. Ullrich, M. Eric Schranz, Yves Van de Peer:
syntenet: an R/Bioconductor package for the inference and analysis of synteny networks. Bioinform. 39(1) (2023) - Piyumi R. Amarasinghe, Lloyd Allison, Peter J. Stuckey, Maria Garcia de la Banda, Arthur M. Lesk, Arun Siddharth Konagurthu:
Getting 'ϕψχal' with proteins: minimum message length inference of joint distributions of backbone and sidechain dihedral angles. Bioinform. 39(Supplement-1): 357-367 (2023) - Iñaki Amatria-Barral, Jorge González-Domínguez, Juan Touriño:
PATO: genome-wide prediction of lncRNA-DNA triple helices. Bioinform. 39(3) (2023) - Sugyun An, Soyeong Jang, Sang-Min Park, Chun-Kyung Lee, Hoon-Min Kim, Kwang-Hyun Cho:
Global stabilizing control of large-scale biomolecular regulatory networks. Bioinform. 39(1) (2023) - Nicola Apollonio, Daniel Blankenberg, Fabio Cumbo, Paolo Giulio Franciosa, Daniele Santoni:
Evaluating homophily in networks via HONTO (HOmophily Network TOol): a case study of chromosomal interactions in human PPI networks. Bioinform. 39(1) (2023) - Pablo Millan Arias, Kathleen A. Hill, Lila Kari:
iDeLUCS: a deep learning interactive tool for alignment-free clustering of DNA sequences. Bioinform. 39(9) (2023) - Ellie E. Armstrong, Michael G. Campana:
RatesTools: a Nextflow pipeline for detecting de novo germline mutations in pedigree sequence data. Bioinform. 39(1) (2023) - Masaki Asada, Makoto Miwa, Yutaka Sasaki:
Integrating heterogeneous knowledge graphs into drug-drug interaction extraction from the literature. Bioinform. 39(1) (2023) - Eric H. Au, Christiana Fauci, Yanting Luo, Riley J. Mangan, Daniel A Snellings, Chelsea R. Shoben, Seth Weaver, Shae K. Simpson, Craig B. Lowe:
Gonomics: uniting high performance and readability for genomics with Go. Bioinform. 39(8) (2023) - Kristiina Ausmees, Carl Nettelblad:
Achieving improved accuracy for imputation of ancient DNA. Bioinform. 39(1) (2023) - Swapnil Awasthi, Chia-Yen Chen, Max Lam, Hailiang Huang, Stephan Ripke, C. Anthony Altar:
GWAS quality score for evaluating associated regions in GWAS analyses. Bioinform. 39(1) (2023) - Anthony J. Aylward, Semar Petrus, Allen Mamerto, Nolan T. Hartwick, Todd P. Michael:
PanKmer: k-mer-based and reference-free pangenome analysis. Bioinform. 39(10) (2023) - Sarah G. Ayton, Victor Treviño:
MuTATE - an R package for comprehensive multi-objective molecular modeling. Bioinform. 39(9) (2023) - Stefan Badelt, Ronny Lorenz, Ivo L. Hofacker:
DrTransformer: heuristic cotranscriptional RNA folding using the nearest neighbor energy model. Bioinform. 39(1) (2023) - Irbaz I Badshah, Pedro R. Cutillas:
Systematic identification of biochemical networks in cancer cells by functional pathway inference analysis. Bioinform. 39(1) (2023) - Mihir Bafna, Hechen Li, Xiuwei Zhang:
CLARIFY: cell-cell interaction and gene regulatory network refinement from spatially resolved transcriptomics. Bioinform. 39(Supplement-1): 484-493 (2023) - Ali Tugrul Balci, Mark Maher Ebeid, Panayiotis V. Benos, Dennis Kostka, Maria Chikina:
An intrinsically interpretable neural network architecture for sequence-to-function learning. Bioinform. 39(Supplement-1): 413-422 (2023)
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