Blog

2023

NOW RECRUITING: 2023-2024 NSF-funded UNDERGRADUATE STEM INTERN!

NOW RECRUITING: 2023-2024 NSF-funded UNDERGRADUATE STEM INTERN!

We are actively accepting applications from current undergraduate STEM students to fill the position of an Undergraduate Researcher at the Mangul Lab for Summer 2023. The Mangul Lab is committed to ensuring an inclusive and supportive environment regardless of age, gender, sexual orientation, disability, race, ethnicity, religion, nationality, or socioeconomic background.

DEADLINE TO APPLY?

Thursday, May 20, 2023 5:00pm Pacifi…


NOW ACCEPTING APPLICATIONS: 2023-2024 USC URAP FELLOW!

USC

Now recruiting: 2023-2024 USC URAP Fellow!

We are actively accepting applications from current USC undergraduate students to fill the position for the USC Undergraduate Research Associates Program in Mangul Lab for Summer 2023, Fall 2023 and Spring 2024. The theme of our URAP fellowship for 2021-2022 is “Robustness and reproducibility of computational genomic tools.” Please review the details below for additional information. The Mangul Lab is committed to ensuring an inclusive and supportiv…


Congratulations to Dhrithi on her acceptance into the USC PHTS Graduate Program!

Congratulations to Dhrithi Deshpande on her acceptance into the prestigious Pharmaceutical & Translational Sciences (PHTS) Graduate Program at USC Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences! This is an extraordinary achievement that is a testament to her hard work, dedication, and academic excellence. We are honored to have had Dhrithi as a Master’s student in our lab, where she led a review of bioinformatics analysis of RNA-Seq data that was recently publi…


Congratulations to Anushka Yadav on landing her new job as a Bioinformatics Analyst at NYU Grossman School of Medicine

Congratulations to Anushka Yadav, a Master’s student in Mangul lab, on landing her new job as a Bioinformatics Analyst at NYU Grossman School of Medicine! It’s always wonderful to see …


Congratulations to Grigore on acceptance into the Georgia State University Graduate Program!

Congratulations to Grigore Boldirev on acceptance into the Georgia State University Graduate Program! We are pleased to share the exciting news that one of our exceptional undergraduat…


Congratulations to Qiushi on acceptance into the University of Notre Dame Graduate Program!

Congratulations to Qiushi Peng on acceptance into the University of Notre Dame Graduate Program! We are thrilled to share with you the news of Qiushi’s acceptance into the Graduate Pro…


Congratulations to Cecilia on Acceptance into USC QCB Graduate Program!

Congratulations to Cecilia Liu on Acceptance into USC QCB Graduate Program! We are delighted to share the exciting news that Cecilia Liu, one of our talented undergraduate students pur…


Mangul Lab Awarded $3.9 Million NIH Grant

AIM-AHEAD

Serghei Mangul was selected as a mentor for NIH AIM-AHEAD Fellowship Serghei Mangul, assistant professor of clinical pharmacy at the USC Mann School of Pharmacy and Pharmaceutical Sciences, was sel…

2022

Mangul Lab to present at the Rocky Bioinformatics Conference 2022

ROCKY

Mangul Lab to present at the Rocky Bioinformatics Conference 2022 Two members of the Mangul lab were invited to give talks at the Rocky Bioinformatics Conference 2022. Serghei Mangul, present a research project titled “Rigorous benchmarking of T cell receptor repertoire profiling methods for cancer RNA sequencing” and Mohammad Vahed, a postdoctoral researcher in our lab, presented a research project titled “A comprehensive analysis of the reusability of public omics data across 4…


Mangul Lab to present at ASHG 2022

ASHG

Looking forward to sharing research findings from Mangul lab with you! Members of Mangul Lab at the University of Southern California School of Pharmacy will present at the 2022 American Society of Human Genetics Annual Meeting in LA:

Platform Presentation: Yesha Patel et al. Reading between the reads: Getting the most out of sequencing results, Session 48, Oct 27 (Thursday), 1:45 pm at Conv Ctr/West Hall A/West Building

Poster presentations: Oct 26 (Wednesday) 3-4:45 PM at Exh…


Mangul Lab to present at the NGSymposium in Computational Biology 2022

NGSymposium

Five members of the lab were invited to give talks at the NGSymposium in Computational Biology. Yesha M. Patel, a Senior Data Scientist in our lab, presented a research project titled “Seeing beyond the target: leveraging off-target reads in clinical tumor sequencing to identify prognostic biomarkers and survival.” Mohammad Vahed, a postdoctoral researcher in our lab, presented a research project titled “A comprehensive analysis of the reusability of public omics data across 2.8 million resea…


My journey to pursuing a PhD in Computer Science

PhD USC UCLA

My journey to pursuing a PhD in Computer Science

All the preconceived notions I held about computer science at UCLA were thrown out the window after the first year of classes. From dissecting asse…


Dottie and Cecilia share their experience at the 2022 USC QCB Conference

QCB USC Los Angeles

Dottie’s Experience

My name is Dottie Yu and I am an undergraduate student in the Quantitative Biology BS program at USC. I am very glad to have attended the 2022 QCB Symposium at USC and present …


Now Recruiting! Seeking volunteers to collect urban microbiome samples and represent Los Angeles in this year’s MetaSUB Global City Sampling Day

urban metro microbiome MetaSUB Los Angeles

Would you like to take part in an exciting, one-day event along with fellow researchers across the globe? Then consider representing Los Angeles in this year’s Global City Sampling Day, hosted by t…


Now recruiting: 2022-2023 Undergraduate STEM Intern!

STEM Internship USC Mangul lab

NOW RECRUITING: 2022-2023 NSF-funded UNDERGRADUATE STEM INTERN!

We are actively accepting applications from current undergraduate STEM students to fill the position of an Undergraduate Researcher …

2021

Now recruiting: Postdoctoral Scholar Research Associate - Bioinformatics and Computational Genomics

USC Mangul lab Postdoc Hiring

A Postdoctoral Scholar Research Associate position is available in the lab of Dr. Serghei Mangul in the Titus Family Department of Clinical Pharmacy, School of Pharmacy at the University of Southern California. The Mangul lab aims to combine open omics data with robust bioinformatics methods to enable novel biological discoveries. This includes designing, developing, and applying novel and robust data-driven, computational approaches that will accelerate the diffusion of genomics and biomedic…


Now recruiting: 2021 USC SURF Program! (4000$ stipend!)

STEM Internship USC Mangul lab

Now recruiting: 2021 USC SURF Program!

We are actively accepting applications from current undergraduate students to fill the position of an Undergraduate Research Associate in the Mangul Lab for Summer 2021. Fellows will receive a $4,000 stipend for a virtual full‐time program during summer (full time, 10 weeks minimum; involvement for a longer period may depend upon project and faculty preference) The Mangul Lab is committed to ensuring an inclusive and supportive environment regardless of…


Now recruiting: 2021-2022 Undergraduate STEM Intern!

STEM Internship USC Mangul lab

Now recruiting: 2021-2022 Undergraduate STEM Intern!

We are actively accepting applications from current undergraduate STEM students to fill the position of an Undergraduate Researcher at the Mangul Lab for Summer 2021.

The Mangul Lab is committed to ensuring an inclusive and supportive environment regardless of age, gender, sexual orientation, disability, race, ethnicity, religion, nationality, or socioeconomic background.

DEADLINE TO APPLY? Thursday, May 20, 2021 5:00pm Pacific Time (We …


Now Accepting Applications: 2021-2022 USC URAP Fellow!

Undergraduates-in-Research USC-URAP

Now recruiting: 2021-2022 USC URAP Fellow!

We are actively accepting applications from current USC undergraduate students to fill the position for the USC Undergraduate Research Associates Program…


Featured in USC School of Pharmacy February 2021 Newsletter

Dhrithi Newsletter USC

A big thank you to USC School of Pharmacy for featuring me in the Graduate Program Newsletter for participating in the Australian Bioinformatics and Computational Biology Society Conference 2020 (…


Featured in USC School of Pharmacy February 2021 Newsletter

Karishma USC

Thank you to USC School of Pharmacy for featuring me in this month’s Graduate Program Newsletter! I presented virtually on “Comprehensive Analysis of Usability and Archival Stability of RNA-seq Too…

2020

Now accepting applications: 2020-2021 USC URAP Undergraduate Fellow!

Undergraduates-in-Research USC-URAP

Accepting applications for the 2020-2021 USC URAP Fellow

We are actively accepting applications from current USC undergraduate students to fill one position for the USC Undergraduate Research Associates Program in Mangul Lab for Fall 2020 and Spring 2021.

The theme of our URAP internship for 2020-2021 is “Big Data Analysis Techniques (BDAT) for Scientific Reproducibility.” Please review the application page for additional information: http://www.sergheimangul.com/opportunities/2020-2021-ura…


Mangul Lab at USC welcomes postdoctoral scholar JungHyun Jung

jj-jung

Welcome to Mangul Lab JJ

Mangul Lab welcomes to the team a new postdoctoral scholar, JungHyun (JJ) Jung! JJ joins Mangul Lab at USC as a new postdoctoral scholar and is co-advised by Dr. Serghei Mangul and Dr. Nicholas Mancuso.

JJ received his Ph.D.in 2020 from Dongguk University in Korea. His research interests include integrative analysis using multi-omic data and method development for functional genomic data. While earning his PhD, JJ was advised by Dr. Jong Wha (Joanne) Joo and worked …


Mangul Lab to present at 2020 ACM-BCB

ACM-BCB Jaque Brito

Mangul Lab to present at 2020 ACM-BCB

Congratulations to Mangul Lab postdoc Jaque Brito, whose highlight talk has been accepted for presentation at the 11th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB).

Jaque will deliver her talk, “Benchmarking of computational error-correction methods for next-generation sequencing data,” at ACM-BCB 2020, which will be held September 21 to 24, 2020, as a virtual conference. The highlight talk will present the m…


Mangul Lab to present at Workshop on Computational Biology in ICML 2020

ICML serghei-mangul

Mangul Lab to present at ICML 2020 Workshop

Serghei will present a highlight talk titled, “Profiling immunoglobulin repertoires across multiple human tissues using RNA Sequencing,” at the ICML 202…


The first HiTSeq talk from Mangul Lab

HiTSeq Metalign nathan-la-pierre

First HiTSeq talk from Mangul Lab

Congratulations to Nathan LaPierre on the acceptance of his abstract to the High Throughput Sequencing (HiTSeq) 2020 virtual meeting.

Nathan will be presenting h…


Mangul Lab to present at BCC2020

BCC jaque-brito niko-darci-maher varuni-sarwal

Mangul Lab to present at BCC2020

Congratulations to Jaque Brito, Mangul Lab postdoctoral scholar, Niko Darci-Maher, Mangul Lab undergraduate researcher, and Varuni Sarwal, Mangul Lab alumni, on th…


Jenny Wu: What I’ve Learned in the Mangul Lab

jenny-wu undergraduates-in-research

Jenny reflects on research in Mangul Lab

I have been in the lab since a junior year at UCLA, and I started out learning about the error correction benchmarking project. I began by learning about t…


Mangul Lab at USC welcomes undergraduate researcher Harman Singh

ICML serghei-mangul

Welcome to Mangul Lab Harman

Mangul Lab welcomes to the team a new undergraduate researcher, Harman Singh!

Harman is an Electrical Engineering sophomore at the Indian Institute of Technology Delh…


The first RECOMB-Seq talk from Mangul Lab

Metalign nathan-la-pierre RECOMB-Seq

First RECOMB-Seq talk from Mangul Lab

Congratulations to Nathan LaPierre, a PhD student in ZarLab at UCLA and a collaborator with Mangul Lab at USC, on the acceptance of his oral presentation, “Me…


Mangul Lab publishes fifth paper presenting a novel method for profiling immunoglobulin (Ig) receptor repertoires from RNA-Seq

method publication software

Mangul Lab publishes fifth paper presenting a novel method for profiling immunoglobulin (Ig) receptor repertoires from RNA-Seq

SMangul Lab at USC published a paper presenting ImReP – a novel compu…


Mangul Lab at USC welcomes Master’s student Anushka Rajesh

anushka-rajesh

Welcome to Mangul Lab Anushka

Mangul Lab welcomes to the team a new Master’s student, Anushka Rajesh!

Anushka is pursuing the Master of Science in Pharmaceutical Sciences at the University of Sou…


Mangul Lab releases fourth paper that recommends ways to enhance rigor and reproducibility in biomedical research

Commentary Publications

Mangul Lab releases fourth paper that recommends ways to enhance rigor and reproducibility in biomedical research

Mangul Lab at USC has published our fourth paper in GigaScience, which presents ou…


Welcome Angela back to Mangul Lab as PhD student

Lab-News

Welcome to Mangul Lab Angela

In May 2020, Angela officially joins Mangul Lab at USC as a PhD student co-advised by Serghei Mangul and Stan Louie. During her first year in the Pharmaceutical & …


Mangul Lab submits preprint of a WGS-based structural variant callers benchmarking study

Benchmarking-study Preprints

Mangul Lab submits preprint of a WGS-based structural variant callers benchmarking study

Mangul Lab at USC shared a new preprint which presents a benchmarking study of structural variant (SV) call…


Mangul Lab pens commentary piece on conference travel for junior scientists in the wake of climate change

Commentary Preprints

Mangul Lab pens commentary piece on conference travel for junior scientists in the wake of climate change

Mangul Lab at USC shared a new preprint of 2020 which presents a conversational editorial …


Mangul Lab publishes third paper – an analysis of microbial reference databases

Commentary Publications

Analysis of microbial reference databases

Today we celebrate the publication of our third peer-reviewed paper since Mangul Lab launched at USC!

Cailtin Loeffler and Aaron Karlsberg, both alumnus …


Mangul Lab joins urgent efforts to track COVID-19 by zipcode

Lab News

Mangul Lab joins urgent efforts to track COVID-19 by zipcode

Members of Mangul Lab have joined efforts with UCLA researchers to curate data that will help hospitals—already burdened by the COVID-1…


Interview in Nature Methods: Bench pressing with genomics benchmarkers

Lab News

Bench pressing with genomics benchmarkers

A journalist with Nature Methods recently interviewed Serghei on the increasingly important role that benchmarking studies play in biomedical and life sci…


Mangul Lab submits preprint presenting Metalign, software that boosts accuracy of existing metagenomic profiling methods

Preprints Method Software

Mangul Lab submits preprint presenting Metalign, software that boosts accuracy of existing metagenomic profiling methods

Mangul Lab at USC shared a new preprint which presents Metalign – a tool de…


Mangul Lab submits preprint presenting recommendations to enhance rigor and reproducibility in biomedical research

Commentary Preprints

Recommendations to enhance rigor and reproducibility in biomedical research

Mangul Lab at USC has shared a new preprint, which presents our group’s review of efforts to improve scientific rigor an…


Mangul Lab publishes second paper – a benchmarking study of error correction methods

Publications Research

Mangul Lab publishes second paper – a benchmarking study of error correction methods

Today we celebrate the publication of our second peer-reviewed paper since Mangul Lab launched at USC.

Keith M…


Mangul Lab submits preprint exploring read alignment techniques for short and long reads

Preprints Review

Mangul Lab submits preprint exploring read alignment techniques for short and long reads

Last week, Mangul Lab at USC shared a new preprint, which presents our group’s review of the role algorithm…


Mangul Lab publishes first paper, a novel tool for managing bioinformatics analyses

ICML serghei-mangul

a novel tool for managing bioinformatics analyses

We are proud to announce that our lab has published our first peer-reviewed paper since we established at USC School of Pharmacy in Fall 2019! Jaq…

2019

Mangul Lab celebrates conclusion of first semester at USC School of Pharmacy

Lab News

End Year Celebration

Our group is celebrating the end of a productive calendar year—and the conclusion of our first semester at USC School of Pharmacy! We are proud to share the preprints and papers we produced with our incredible collaborators at ZarLab in the Department of Computational Medicine at UCLA, members of our own group now in the Titus Department of Clinical Pharmacy at USC, and the Genotype-Tissue Expression (GTEx) Consortium.

Earlier this week, we celebrated our lab’s accompli…


Mangul Lab submits preprint presenting a comprehensive review of the diagnostic and therapeutic potential of metagenomics

Preprints Review

Mangul Lab submits preprint presenting a comprehensive review of the diagnostic and therapeutic potential of metagenomics

Just before the Thanksgiving holiday break, Mangul Lab at USC released our second preprint—a review of the diagnostic and therapeutic potential of metagenomics.

Several members of our group—Caitlin Loeffler (Bioinformatics Analyst), Lana Martin (Project Specialist), Yutong Chang (Master’s student), Jeremy Rotman (alumni)—collaborated with Keylie Gibson, Ian Toma, and Kei…


Mangul Lab at USC attends first conference at ICCABS 2019 in Miami

Lab News

Mangul Lab at ICCABS 2019

Last week, Serghei Mangul and Kerui Peng attended the 2019 9th International Conference on Computational Advances in Bio and medical Sciences (ICCABS) at Florida International University in Miami!

Kerui, a PhD rotation student in Mangul Lab at USC, presented her research in an oral presentation, “Reuse of publicly available omics data across 1 million research publications,” at the meeting’s 9th Workshop on Computational Advances for Next Generation Sequencing.

In…


Mangul Lab PhD student Kerui Peng wins travel award to present at ICCABS 2019

Lab News

Mangul Lab PhD student Kerui Peng wins travel award to present at ICCABS 2019

Congratulations to Kerui Peng, a PhD rotation student in Mangul Lab at USC, on the acceptance of her oral presentation…


Mangul Lab member Sei Chang reflects on summer undergraduate research experience

Education

Mangul Lab member Sei Chang reflects on summer undergraduate research experience

Working in a research lab can be an invaluable experience for undergrads — and immersive summer research experience…


Mangul Lab submits first preprint presenting app for managing high-throughput analyses via mobile device

method preprints software

Mangul Lab submits first preprint presenting app for managing high-throughput analyses via mobile device

This week, Mangul Lab at USC released our first preprint, a paper that presents Telescope –…


UCLA undergraduate students and alumni join Mangul Lab at USC

Lab News

UCLA undergraduate students and alumni join Mangul Lab at USC

We are excited to announce that a group of talented Bruins will be continuing their on-going computational genomics projects as inaugu…


Mangul Lab is recruiting!

Lab News

Mangul Lab is recruiting!

The Mangul Lab at USC is looking for talented and highly motivated graduate students and post-docs. For more information, please see our Opportunities posting.


Serghei Mangul Joins USC School of Pharmacy Faculty

Lab News

Serghei joins USC Faculty

As of September 1, 2019, Serghei Mangul, PhD, has joined the faculty of the Titus Department of Clinical Pharmacy as assistant professor of pharmacy.

Read more about it …