Hamim Zafar

发表

SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models

Ken Chen, Nicholas Navin, Hamim Zafar, 2017, Genome Biology.

Monovar: single nucleotide variant detection in single cells

Ken Chen, Luay Nakhleh, Nicholas Navin, 2016, Nature Methods.

Computational approaches for inferring tumor evolution from single-cell genomic data

Ken Chen, Luay Nakhleh, Nicholas Navin, 2018 .

SiFit: A Method for Inferring Tumor Trees from Single-Cell Sequencing Data under Finite-site Models

N. Navin, L. Nakhleh, Ken Chen, 2016, bioRxiv.

Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data

Z. Bar-Joseph, C. Lin, Hamim Zafar, 2020, Nature Communications.

SiCloneFit: Bayesian inference of population structure, genotype, and phylogeny of tumor clones from single-cell genome sequencing data

Ken Chen, Luay Nakhleh, Nicholas Navin, 2018, Genome Research.

scDREAMER: atlas-level integration of single-cell datasets using deep generative model paired with adversarial classifier

Hamim Zafar, Ajita Shree, Musale Krushna Pavan, 2022, bioRxiv.

Matrilysin/MMP-7 Cleavage of Perlecan/HSPG2 Complexed with Semaphorin 3A Supports FAK-Mediated Stromal Invasion by Prostate Cancer Cells

L. Nakhleh, L. Chung, D. Harrington, 2018, Scientific Reports.

Inference of cell state transitions and cell fate plasticity from single-cell with MARGARET

Hamim Zafar, Kushagra Pandey, 2021, bioRxiv.

Phylovar: Towards scalable phylogeny-aware inference of single-nucleotide variations from single-cell DNA sequencing data

Huw A. Ogilvie, L. Nakhleh, D. Posada, 2022, bioRxiv.

SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models

N. Navin, Ken Chen, Hamim Zafar, 2017, Genome Biology.

A Combinatorial Approach for Single-cell Variant Detection via Phylogenetic Inference

Luay Nakhleh, Hamim Zafar, Mohammadamin Edrisi, 2019, bioRxiv.

Pre-metastatic niche drives breast cancer invasion by modulating MSC homing and CAF differentiation

S. Sen, S. Jadhav, Hamim Zafar, 2021, bioRxiv.

Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data

Z. Bar-Joseph, C. Lin, Hamim Zafar, 2019, bioRxiv.

Modified Local Neighborhood Based Niching Particle Swarm Optimization for Multimodal Function Optimization

Pradipta Ghosh, Ankush Mandal, Hamim Zafar, 2011, SEMCCO.

Solution of Economic Load Dispatch Problem Using Lbest-Particle Swarm Optimization with Dynamically Varying Sub-swarms

Bijaya K. Panigrahi, B. K. Panigrahi, Arkabandhu Chowdhury, 2011, SEMCCO.

EFFICIENT CIRCULAR ARRAY SYNTHESIS WITH A MEMETIC DIFFERENTIAL EVOLUTION ALGORITHM

Swagatam Das, Ankush Mandal, Hamim Zafar, 2012 .

A MODIFIED DIFFERENTIAL EVOLUTION ALGORITHM FOR SHAPED BEAM LINEAR ARRAY ANTENNA DESIGN

Swagatam Das, Ankush Mandal, Hamim Zafar, 2012 .

Charting spatial ligand-target activity using Renoir

F. Ginhoux, Hamim Zafar, Rhea Pai, 2023, bioRxiv.

Thrombospondin 2 is a key determinant of fibrogenesis in NAFLD

Hamim Zafar, N. Tanaka, Takefumi Kimura, 2023, bioRxiv.

FiMO: Inferring the Temporal Order of Mutations on Clonal Phylogeny under Finite-sites Models

Hamim Zafar, Avesh Kumar Agrawal, 2022, bioRxiv.

Molecular mechanism of synovial joint site specification and induction in developing vertebrate limbs.

T. Capellini, Hamim Zafar, M. Torres, 2023, Development.

Adaptive-Differential-Evolution-Based Design of Two-Channel Quadrature Mirror Filter Banks for Sub-Band Coding and Data Transmission

Swagatam Das, Pradipta Ghosh, Hamim Zafar, 2012, IEEE Transactions on Systems, Man, and Cybernetics, Part C (Applications and Reviews).

Design of Two-Channel Quadrature Mirror Filter Banks Using Differential Evolution with Global and Local Neighborhoods

Swagatam Das, Joydeep Banerjee, Pradipta Ghosh, 2011, SEMCCO.

An efficient memetic algorithm for parameter tuning of PID controller in AVR system

Ajith Abraham, Swagatam Das, Pradipta Ghosh, 2011, 2011 11th International Conference on Hybrid Intelligent Systems (HIS).

Hierarchical dynamic neighborhood based Particle Swarm Optimization for global optimization

Ajith Abraham, Swagatam Das, Pradipta Ghosh, 2011, 2011 IEEE Congress of Evolutionary Computation (CEC).

Pre-metastatic niche drives breast cancer invasion by modulating MSC homing and CAF di(cid:11)erentiation

Hamim Zafar, Neha Saxena, Garvit Bhardwaj, 2022 .

Comments on the model parameters in “SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models”

N. Navin, L. Nakhleh, Ken Chen, 2019, Genome Biology.

scDREAMER for atlas-level integration of single-cell datasets using deep generative model paired with adversarial classifier

Hamim Zafar, Ajita Shree, Musale Krushna Pavan, 2023, Nature communications.