Erin K. Molloy

31 papers B 3C 6Journal 19Unranked 2
YearRankTypeTitle / Venue / Authors
2026 J jnl
StarCDP: Dynamic Programming Algorithms for Fast and Accurate Cell Lineage Tree Reconstruction from CRISPR-Based Lineage Tracing Data.
J. Comput. Biol.
Junyan Dai, Erin K. Molloy
2025 B conf
A Partition Function Algorithm to Evaluate Inferred Subclonal Structures in Single-Cell Sequencing Data.
RECOMB
Farid Rashidi Mehrabadi, Erfan Sadeqi Azer, John D. Bridgers, Eva Pérez-Guijarro, Kerrie Marie, Howard H. Yang, Charli Gruen, Chih Hao Wu, Welles Robinson, Huaitian Liu, Can Kizilkale, Michael C. Kelly, Cari Smith, Sung Chin, Jessica Ebersole, Sandra Burkett, Aydin Buluç, Maxwell P. Lee, Erin K. Molloy, Teresa M. Przytycka, Glenn Merlino, Chi-Ping Day, Salem Malikic, Funda Ergün, S. Cenk Sahinalp
2025 B conf
Dynamic Programming Algorithms for Fast and Accurate Cell Lineage Tree Reconstruction from CRISPR-Based Lineage Tracing Data.
RECOMB
Junyan Dai, Erin K. Molloy
2024 J jnl
Dollo-CDP: a polynomial-time algorithm for the clade-constrained large Dollo parsimony problem.
Algorithms Mol. Biol.
Junyan Dai, Tobias Rubel, Yunheng Han, Erin K. Molloy
2024 J jnl
Fast, parallel, and cache-friendly suffix array construction.
Algorithms Mol. Biol.
Jamshed Khan, Tobias Rubel, Erin K. Molloy, Laxman Dhulipala, Rob Patro
2023 C conf
Fast, Parallel, and Cache-Friendly Suffix Array Construction.
WABI
Jamshed Khan, Tobias Rubel, Laxman Dhulipala, Erin K. Molloy, Rob Patro
2023 C conf
Leveraging Constraints Plus Dynamic Programming for the Large Dollo Parsimony Problem.
WABI
Junyan Dai, Tobias Rubel, Yunheng Han, Erin K. Molloy
2023 C conf
Quartets Enable Statistically Consistent Estimation of Cell Lineage Trees Under an Unbiased Error and Missingness Model (Abstract).
WABI
Yunheng Han, Erin K. Molloy
2023 J jnl
Quartets enable statistically consistent estimation of cell lineage trees under an unbiased error and missingness model.
Algorithms Mol. Biol.
Yunheng Han, Erin K. Molloy
2021 J jnl
Advancing admixture graph estimation via maximum likelihood network orientation.
Bioinform.
Erin K. Molloy, Arun Durvasula, Sriram Sankararaman
2021 J jnl
Polynomial-Time Statistical Estimation of Species Trees Under Gene Duplication and Loss.
J. Comput. Biol.
Brandon Legried, Erin K. Molloy, Tandy J. Warnow, Sébastien Roch
2021 J jnl
TIPP2: metagenomic taxonomic profiling using phylogenetic markers.
Bioinform.
Nidhi Shah, Erin K. Molloy, Mihai Pop, Tandy J. Warnow
2021 J jnl
Using Constrained-INC for Large-Scale Gene Tree and Species Tree Estimation.
IEEE ACM Trans. Comput. Biol. Bioinform.
Thien Le, Aaron Sy, Erin K. Molloy, Qiuyi Zhang, Satish Rao, Tandy J. Warnow
2021 J jnl
Using Robinson-Foulds supertrees in divide-and-conquer phylogeny estimation.
Algorithms Mol. Biol.
Xilin Yu, Thien Le, Sarah A. Christensen, Erin K. Molloy, Tandy J. Warnow
2020 C conf
Advancing Divide-And-Conquer Phylogeny Estimation Using Robinson-Foulds Supertrees.
WABI
Xilin Yu, Thien Le, Sarah A. Christensen, Erin K. Molloy, Tandy J. Warnow
2020 J jnl
FastMulRFS: fast and accurate species tree estimation under generic gene duplication and loss models.
Bioinform.
Erin K. Molloy, Tandy J. Warnow
2020 J jnl
Non-parametric correction of estimated gene trees using TRACTION.
Algorithms Mol. Biol.
Sarah A. Christensen, Erin K. Molloy, Pranjal Vachaspati, Ananya Yammanuru, Tandy J. Warnow
2020 B conf
Polynomial-Time Statistical Estimation of Species Trees Under Gene Duplication and Loss.
RECOMB
Brandon Legried, Erin K. Molloy, Tandy J. Warnow, Sébastien Roch
2020 — —
Supertree-like methods for genome-scale species tree estimation
Erin K. Molloy
2019 J jnl
Statistically consistent divide-and-conquer pipelines for phylogeny estimation using NJMerge.
Algorithms Mol. Biol.
Erin K. Molloy, Tandy J. Warnow
2019 C conf
TRACTION: Fast Non-Parametric Improvement of Estimated Gene Trees.
WABI
Sarah A. Christensen, Erin K. Molloy, Pranjal Vachaspati, Tandy J. Warnow
2019 J jnl
TreeMerge: a new method for improving the scalability of species tree estimation methods.
Bioinform.
Erin K. Molloy, Tandy J. Warnow
2019 — conf
Using INC Within Divide-and-Conquer Phylogeny Estimation.
AlCoB
Thien Le, Aaron Sy, Erin K. Molloy, Qiuyi (Richard) Zhang, Satish Rao, Tandy J. Warnow
2018 — conf
NJMerge: A Generic Technique for Scaling Phylogeny Estimation Methods and Its Application to Species Trees.
RECOMB-CG
Erin K. Molloy, Tandy J. Warnow
2018 J jnl
OCTAL: Optimal Completion of gene trees in polynomial time.
Algorithms Mol. Biol.
Sarah A. Christensen, Erin K. Molloy, Pranjal Vachaspati, Tandy J. Warnow
2017 C conf
Optimal Completion of Incomplete Gene Trees in Polynomial Time Using OCTAL.
WABI
Sarah A. Christensen, Erin K. Molloy, Pranjal Vachaspati, Tandy J. Warnow
2015 J jnl
Using Edge Voxel Information to Improve Motion Regression for rs-fMRI Connectivity Studies.
Brain Connect.
Rémi Patriat, Erin K. Molloy, Rasmus M. Birn
2014 J jnl
The Influence of Physiological Noise Correction on Test-Retest Reliability of Resting-State Functional Connectivity.
Brain Connect.
Rasmus M. Birn, Maria Daniela Cornejo, Erin K. Molloy, Rémi Patriat, Timothy B. Meier, Gregory R. Kirk, Veena A. Nair, Mary Elizabeth Meyerand, Vivek Prabhakaran
2014 J jnl
The influence of spatial resolution and smoothing on the detectability of resting-state and task fMRI.
NeuroImage
Erin K. Molloy, Mary E. Meyerand, Rasmus M. Birn
2013 J jnl
The effect of resting condition on resting-state fMRI reliability and consistency: A comparison between resting with eyes open, closed, and fixated.
NeuroImage
Rémi Patriat, Erin K. Molloy, Timothy B. Meier, Gregory R. Kirk, Veena A. Nair, Mary E. Meyerand, Vivek Prabhakaran, Rasmus M. Birn
2013 J jnl
The effect of scan length on the reliability of resting-state fMRI connectivity estimates.
NeuroImage
Rasmus M. Birn, Erin K. Molloy, Rémi Patriat, Taurean Parker, Timothy B. Meier, Gregory R. Kirk, Veena A. Nair, Mary Elizabeth Meyerand, Vivek Prabhakaran