Sahand Hormoz

Affiliations

Department of Data Sciences, Dana-Farber Cancer Institute, Boston, MA, USA; Department of Systems Biology, Harvard Medical School, Boston, MA, USA; Broad Institute of MIT and Harvard, Cambridge, MA, USA. Electronic address: sahand_hormoz@hms.harvard.edu.

Publications (18)

An Engineered CRISPR-Cas9 Mouse Line for Simultaneous Readout of Lineage Histories and Gene Expression Profiles in Single Cells.

Cell

Avec: Sarah Bowling , Duluxan Sritharan , Fernando G Osorio , Maximilian Nguyen , Priscilla Cheung , Alejo Rodriguez-Fraticelli , Sachin Patel , Wei-Chien Yuan , Yuko Fujiwara , Bin E Li , Stuart H Orkin , Sahand Hormoz , Fernando D Camargo

De novo detection of somatic mutations in high-throughput single-cell profiling data sets.

Nature biotechnology

Avec: Francesc Muyas , Carolin M Sauer , Jose Espejo Valle-Inclán , Ruoyan Li , Raheleh Rahbari , Thomas J Mitchell , Sahand Hormoz , Isidro Cortés-Ciriano

scAI-SNP: a method for inferring ancestry from single-cell data.

bioRxiv : the preprint server for biology

Avec: Sung Chul Hong , Francesc Muyas , Isidro Cortés-Ciriano , Sahand Hormoz

An efficient solution to Hidden Markov Models on trees with coupled branches.

ArXiv

Avec: Farzan Vafa , Sahand Hormoz

An improved rhythmicity analysis method using Gaussian Processes detects cell-density dependent circadian oscillations in stem cells.

bioRxiv : the preprint server for biology

Avec: Shabnam Sahay , Shishir Adhikari , Sahand Hormoz , Shaon Chakrabarti

A novel deep learning-based 3D cell segmentation framework for future image-based disease detection.

Scientific reports

Avec: Andong Wang , Qi Zhang , Yang Han , Sean Megason , Sahand Hormoz , Kishore R Mosaliganti , Jacqueline C K Lam , Victor O K Li

Computing the Riemannian curvature of image patch and single-cell RNA sequencing data manifolds using extrinsic differential geometry.

Proceedings of the National Academy of Sciences of the United States of America

Avec: Duluxan Sritharan , Shu Wang , Sahand Hormoz

ProBac-seq, a bacterial single-cell RNA sequencing methodology using droplet microfluidics and large oligonucleotide probe sets.

Nature protocols

Avec: Prosenjit Samanta , Samuel F Cooke , Ryan McNulty , Sahand Hormoz , Adam Rosenthal

The role of LEDGF in transcription is exploited by HIV-1 to position integration.

bioRxiv : the preprint server for biology

Avec: Rakesh Pathak , Caroline Esnault , Rajalingam Radhakrishnan , Parmit K Singh , Hongen Zhang , Ryan Dale , Abhishek Anand , Gregory J Bedwell , Alan N Engelman , Ali Rabi , Sahand Hormoz , Priyanka Singh , Henry L Levin

Transcriptional differences between JAK2-V617F and wild-type bone marrow cells in patients with myeloproliferative neoplasms.

Experimental hematology

Avec: Debra Van Egeren , Baransel Kamaz , Shichen Liu , Maximilian Nguyen , Christopher R Reilly , Maria Kalyva , Daniel J DeAngelo , Ilene Galinsky , Martha Wadleigh , Eric S Winer , Marlise R Luskin , Richard M Stone , Jacqueline S Garcia , Gabriela S Hobbs , Franziska Michor , Isidro Cortes-Ciriano , Ann Mullally , Sahand Hormoz

Evaluation of Arai et al.: What Can Differences across Daughter Cells Tell Us about Stem Cell Renewal?

Cell systems

Avec: Sahand Hormoz

Reconstructing the Lineage Histories and Differentiation Trajectories of Individual Cancer Cells in Myeloproliferative Neoplasms.

Cell stem cell

Avec: Debra Van Egeren , Javier Escabi , Maximilian Nguyen , Shichen Liu , Christopher R Reilly , Sachin Patel , Baransel Kamaz , Maria Kalyva , Daniel J DeAngelo , Ilene Galinsky , Martha Wadleigh , Eric S Winer , Marlise R Luskin , Richard M Stone , Jacqueline S Garcia , Gabriela S Hobbs , Fernando D Camargo , Franziska Michor , Ann Mullally , Isidro Cortes-Ciriano , Sahand Hormoz

Integrating readout of somatic mutations in individual cells with single-cell transcriptional profiling.

STAR protocols

Avec: Shichen Liu , Maximilian Nguyen , Sahand Hormoz

Probe-based bacterial single-cell RNA sequencing predicts toxin regulation.

Nature microbiology

Avec: Ryan McNulty , Duluxan Sritharan , Seong Ho Pahng , Jeffrey P Meisch , Shichen Liu , Melanie A Brennan , Gerda Saxer , Sahand Hormoz , Adam Z Rosenthal

Paraxial mesoderm organoids model development of human somites.

eLife

Avec: Christoph Budjan , Shichen Liu , Adrian Ranga , Senjuti Gayen , Olivier Pourquié , Sahand Hormoz

Deciphering cell states and genealogies of human hematopoiesis.

Nature

Avec: Chen Weng , Fulong Yu , Dian Yang , Michael Poeschla , L Alexander Liggett , Matthew G Jones , Xiaojie Qiu , Lara Wahlster , Alexis Caulier , Jeffrey A Hussmann , Alexandra Schnell , Kathryn E Yost , Luke Koblan , Jorge D Martin-Rufino , Joseph Min , Alessandro Hammond , Daniel Ssozi , Raphael Bueno , Hari Mallidi , Antonia Kreso , Javier Escabi , William M Rideout , Tyler Jacks , Sahand Hormoz , Peter van Galen , Jonathan S Weissman , Vijay G Sankaran

Collective polymerase dynamics emerge from DNA supercoiling during transcription.

Biophysical journal

Avec: Stuart A Sevier , Sahand Hormoz

An improved rhythmicity analysis method using Gaussian Processes detects cell-density dependent circadian oscillations in stem cells.

Bioinformatics (Oxford, England)

Avec: Shabnam Sahay , Shishir Adhikari , Sahand Hormoz , Shaon Chakrabarti

Réseau de co-auteurs

Shichen Liu 5 collaborations

Maximilian Nguyen 4 collaborations

Duluxan Sritharan 3 collaborations

Sachin Patel 2 collaborations

Fernando D Camargo 2 collaborations

Francesc Muyas 2 collaborations

Isidro Cortés-Ciriano 2 collaborations

Shabnam Sahay 2 collaborations

Shishir Adhikari 2 collaborations

Shaon Chakrabarti 2 collaborations

Ryan McNulty 2 collaborations

Debra Van Egeren 2 collaborations

Baransel Kamaz 2 collaborations

Christopher R Reilly 2 collaborations

Maria Kalyva 2 collaborations

Daniel J DeAngelo 2 collaborations

Ilene Galinsky 2 collaborations

Martha Wadleigh 2 collaborations

Eric S Winer 2 collaborations

Marlise R Luskin 2 collaborations

Richard M Stone 2 collaborations

Jacqueline S Garcia 2 collaborations

Gabriela S Hobbs 2 collaborations

Franziska Michor 2 collaborations

Isidro Cortes-Ciriano 2 collaborations

Ann Mullally 2 collaborations

Javier Escabi 2 collaborations

Sarah Bowling 1 collaboration

Fernando G Osorio 1 collaboration

Priscilla Cheung 1 collaboration

Alejo Rodriguez-Fraticelli 1 collaboration

Wei-Chien Yuan 1 collaboration

Yuko Fujiwara 1 collaboration

Bin E Li 1 collaboration

Stuart H Orkin 1 collaboration

Carolin M Sauer 1 collaboration

Jose Espejo Valle-Inclán 1 collaboration

Ruoyan Li 1 collaboration

Raheleh Rahbari 1 collaboration

Thomas J Mitchell 1 collaboration

Sung Chul Hong 1 collaboration

Farzan Vafa 1 collaboration

Andong Wang 1 collaboration

Qi Zhang 1 collaboration

Yang Han 1 collaboration

Sean Megason 1 collaboration

Kishore R Mosaliganti 1 collaboration

Jacqueline C K Lam 1 collaboration

Victor O K Li 1 collaboration

Shu Wang 1 collaboration

Prosenjit Samanta 1 collaboration

Samuel F Cooke 1 collaboration

Adam Rosenthal 1 collaboration

Rakesh Pathak 1 collaboration

Caroline Esnault 1 collaboration

Rajalingam Radhakrishnan 1 collaboration

Parmit K Singh 1 collaboration

Hongen Zhang 1 collaboration

Ryan Dale 1 collaboration

Abhishek Anand 1 collaboration

Gregory J Bedwell 1 collaboration

Alan N Engelman 1 collaboration

Ali Rabi 1 collaboration

Priyanka Singh 1 collaboration

Henry L Levin 1 collaboration

Seong Ho Pahng 1 collaboration

Jeffrey P Meisch 1 collaboration

Melanie A Brennan 1 collaboration

Gerda Saxer 1 collaboration

Adam Z Rosenthal 1 collaboration

Christoph Budjan 1 collaboration

Adrian Ranga 1 collaboration

Senjuti Gayen 1 collaboration

Olivier Pourquié 1 collaboration

Chen Weng 1 collaboration

Fulong Yu 1 collaboration

Dian Yang 1 collaboration

Michael Poeschla 1 collaboration

L Alexander Liggett 1 collaboration

Matthew G Jones 1 collaboration

Xiaojie Qiu 1 collaboration

Lara Wahlster 1 collaboration

Alexis Caulier 1 collaboration

Jeffrey A Hussmann 1 collaboration

Alexandra Schnell 1 collaboration

Kathryn E Yost 1 collaboration

Luke Koblan 1 collaboration

Jorge D Martin-Rufino 1 collaboration

Joseph Min 1 collaboration

Alessandro Hammond 1 collaboration

Daniel Ssozi 1 collaboration

Raphael Bueno 1 collaboration

Hari Mallidi 1 collaboration

Antonia Kreso 1 collaboration

William M Rideout 1 collaboration

Tyler Jacks 1 collaboration

Peter van Galen 1 collaboration

Jonathan S Weissman 1 collaboration

Vijay G Sankaran 1 collaboration

Stuart A Sevier 1 collaboration