Manolis Kellis

Affiliations:

Massachusetts Institute of Technology, Cambridge, USA

According to our database¹, Manolis Kellis authored at least 48 papers between 2004 and 2024.

Collaborative distances:

Dijkstra number² of four.
Erdős number³ of three.

Timeline

In proceedings

Bibliography

Contextualized: Heterogeneous Modeling Toolbox.

J. Open Source Softw., 2024

ProteinRPN: Towards Accurate Protein Function Prediction with Graph-Based Region Proposals.

TrustLLM: Trustworthiness in Large Language Models.

Position: TrustLLM: Trustworthiness in Large Language Models.

Proceedings of the Forty-first International Conference on Machine Learning, 2024

GENCODE: reference annotation for the human and mouse genomes in 2023.

Nucleic Acids Res., January, 2023

Contextualized Machine Learning.

LLMs Understand Glass-Box Models, Discover Surprises, and Suggest Repairs.

Combinatorial Optimization for Predicting Optimal Cell-state Conversion Paths.

Proceedings of the 16th International Congress on Image and Signal Processing, 2023

GENCODE 2021.

Nucleic Acids Res., 2021

NOTMAD: Estimating Bayesian Networks with Sample-Specific Structures and Parameters.

Spectral Alignment of Graphs.

IEEE Trans. Netw. Sci. Eng., 2020

Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.

Network Infusion to Infer Information Sources in Networks.

IEEE Trans. Netw. Sci. Eng., 2019

GENCODE reference annotation for the human and mouse genomes.

Nucleic Acids Res., 2019

Causal Mediation Analysis Leveraging Multiple Types of Summary Statistics Data.

ncdDetect2: improved models of the site-specific mutation rate in cancer and driver detection with robust significance evaluation.

Bioinform., 2019

Genie: A Secure, Transparent Sharing and Services Platform for Genetic and Health Data.

A latent topic model for mining heterogenous non-randomly missing electronic health records data.

RANGER-DTL 2.0: rigorous reconstruction of gene-family evolution by duplication, transfer and loss.

Bioinform., 2018

Network Maximal Correlation.

IEEE Trans. Netw. Sci. Eng., 2017

HaploReg v4: systematic mining of putative causal variants, cell types, regulators and target genes for human complex traits and disease.

Nucleic Acids Res., 2016

Spectral Alignment of Networks.

SwiSpot: modeling riboswitches by spotting out switching sequences.

Bioinform., 2016

Integrative analysis of 111 reference human epigenomes Open.

Preface: RECOMB/ISCB Systems Biology, Regulatory Genomics, and DREAM 2014 Special Issue.

J. Comput. Biol., 2015

A Perspective on Future Research Directions in Information Theory.

Improved gene tree error correction in the presence of horizontal gene transfer.

Bioinform., 2015

Comparative analysis of metazoan chromatin organization Open.

Comparative analysis of regulatory information and circuits across distant species Open.

RECOMB/ISCB Systems Biology, Regulatory Genomics, and DREAM 2013 Special Issue.

J. Comput. Biol., 2014

Diversifying Sparsity Using Variational Determinantal Point Processes.

Pareto-optimal phylogenetic tree reconciliation.

Bioinform., 2014

RFECS: A Random-Forest Based Algorithm for Enhancer Identification from Chromatin State.

PLoS Comput. Biol., 2013

Preface: RECOMB Systems Biology, Regulatory Genomics, and DREAM 2012 Special Issue.

J. Comput. Biol., 2013

Reconciliation Revisited: Handling Multiple Optima when Reconciling with Duplication, Transfer, and Loss.

J. Comput. Biol., 2013

Session Introduction.

Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013

HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants.

Nucleic Acids Res., 2012

Preface: RECOMB Systems Biology, Regulatory Genomics, and DREAM 2011 Special Issue.

J. Comput. Biol., 2012

Efficient algorithms for the reconciliation problem with gene duplication, horizontal transfer and loss.

Bioinform., 2012

J. Comput. Biol., 2011

SubMAP: Aligning Metabolic Pathways with Subnetwork Mappings.

J. Comput. Biol., 2011

PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions.

Bioinform., 2011

Discovery and Characterization of Chromatin States for Systematic Annotation of the Human Genome.

Proceedings of the Research in Computational Molecular Biology, 2011

Motif discovery in physiological datasets: A methodology for inferring predictive elements.

ACM Trans. Knowl. Discov. Data, 2010

Information-Theoretic Inference of Gene Networks Using Backward Elimination.

Proceedings of the International Conference on Bioinformatics & Computational Biology, 2010

Performance and Scalability of Discriminative Metrics for Comparative Gene Identification in 12 <i>Drosophila</i> Genomes.

PLoS Comput. Biol., 2008

Network Motif Discovery Using Subgraph Enumeration and Symmetry-Breaking.

Proceedings of the Research in Computational Molecular Biology, 2007

Methods in Comparative Genomics: Genome Correspondence, Gene Identification and Regulatory Motif Discovery.

J. Comput. Biol., 2004

Manolis Kellis

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Manolis Kellis

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