Daniel Emerson, Miriam Minsk, Ashley Cook, and Jordan Barnett publish their 3D genome and replication origins paper https://www.nature.com/articles/s41586-022-04803-0
Spencer Haws is the recipient of the New York Stem Cell Foundation Druckenmiller Postdoc Fellowship. Congratulations Spencer, and welcome to the NYSCF community!
Brian Franklin passes his qualifying exam in the Cell and Molecular Biology graduate group. Congratulations Brian!
Katelyn R. Titus defends her PhD proposal and advances as a PhD candidate in Penn’s Bioengineering graduate program. Congratulations Kate!
Miriam Minsk will begin the MD/PhD program at UCSF in September 2022. Congratulations Miriam!
Emily J. Pickup passes her qualifying exam and advances as a PhD candidate in Penn’s Neuroscience graduate program. Congratulations Emily!
Congratulations to our alum Jon Beagan who received the LSRF postdoctoral fellowship for his work in Daniel Colon Ramos lab at Yale.
Harshini Chandrashekar speaks on her work at Penn’s NeuroEpigenetics interest group.
Jon Beagan’s paper on cohesin-independent loops during neural stimulation is accepted at eLIFE!
Dan Emerson and Ashley Cook’s paper on cohesin-mediated loops and human replication origins is accepted at Nature!
Zoltan Simandi speaks on his work at Penn’s Epigenetics Institute
Jordan Barnett’s collaborative work with the Joyce lab is available on BioRxiv: https://doi.org/10.1101/2022.04.08.487672
Avi Waldman and Rohan Patel receive Honorable Mentions for the NSF GRFP – congratulations!
Linda Zhou matches at her first choice for residency – UPenn Dermatology
Alexandria Nikish is the recipient of the UPenn T32 Neurotechnology training grant. Congratulations Ali!
Miriam Minsk is accepted into USCF, Johns Hopkins, and Tri-I MD/PhD programs – congratulations Miriam!
Ken Chandradoss speaks on his work at Penn’s Epigenetics Institute
Congratulations to our postdoc Dr. Ji Hun Kim on receiving a faculty position the Korea Advanced Institute of Science and Technology! Ji Hun will start his lab building upon his light activated dynamic looping tool and understanding the role for loops in gene expression.
Cremins lab organizes the 2021 3D genome Keystone conference along with colleagues Stavros Lomvardes and Job Dekker
Jenn awarded ISSCR Dr. Susan B. Lim Outstanding New Investigator
Lab receives 2021 NIH pioneer award
Emily Pickup joins the lab – welcome Emily!
Harshini Chandrashekar successfully passes her PhD qualifying exam!
Thomas Malachowski successfully passes his PhD qualifying exam!
Rohan Patel joins the lab – welcome Rohan!
Avi Waldman joins the lab – welcome Avi!
Brian Franklin passes his Step One exam. Congratulations Brian!
Zoltan Simandi attends CZI faculty application training program.
Jordan Barnett joins the lab – welcome Jordan!
Dan Emerson successfully passes his PhD qualifying exam!
Linda Zhou, PhD wins the Saul Winegrad award for 2021 best thesis for Penn GCB.
Congratulations to Linda, Ken, Thomas, Chunmin, Ji Hun, Wanfeng, Kate, and Chuanbin for the posting of their new manuscript to BioRxiv.
Ali and Kenneth publish their opinion paper on in situ sequencing in Molecular Cell.
Spencer Haws joins the lab – welcome Spencer!
Michael Guo wins an R25 NIH physician-scientist fellowship. Congratulations Mike!
The Lab has officially moved to a new lab space in the Clinical Research Building!
Lab receives two U01 grants from the 4D Nucleome Consortium.
The lab receives a grant from the Friedreich’s Ataxia Research Alliance.
Linda Zhou passes her PhD defense with flying colors. Congratulations Dr. Zhou!
Spencer Hawes has decided to join lab!
The lab receives funding through the Chan Zuckerberg Initiative for a Neurodegenerative Disease Pairs collaboration with Dr. Kristen Brennand
Danying Guan joins the lab for the summer as part of the
The American Physician Scientists Association (APSA) Virtual Summer Research Program. Welcome Danying!
Congratulations to Ali Nikish for passing her Ph.D. qualifying exam!
Noah Barnett, David Barto, Ashley Cook, Nathan Ehrenreich, Thomas Malachowski, and Ken Raanin Chandradoss have officially joined the lab. Welcome!
Congratulations to Kate Titus for passing her Ph.D. qualifying exam!
Jon Beagan presents at a virtual conference sponsored by Arima alongside
Dan Geschwind and Schahram Akbarian
Jon Beagan wins the 2020 Sol Pollack award for the PhD thesis
representing original research at the forefront of its field.
Miriam Minsk and Kelly Feng wrap up their junior year after conquering
the challenging Covid-19 virtual semester. Miriam and Kelly – we are so
proud of you.
Jennifer gives a virtual seminar at New York University
Jennifer speaks on the lab’s work at Cold Spring Harbor Biology of
Genomes virtual meeting
Jennifer speaks on the lab’s work at Cold Spring Harbor Genome
Organization virtual meeting
Jenn receives positive news of the NSF CAREER award
Congratulations to Dr. Thomas Gilgenast PhD on successfully defending
his thesis!
The lab passes the tenure milestone!
Congratulations Dan Emerson on his acceptance into Penn Bioengineering’s
PhD program. Welcome to the lab as a PhD student Dan!
Congratulations Harshini Chandrashekar on her acceptance into Penn
Bioengineering’s PhD program. Welcome to the lab as a PhD student
Harshini!
Warmest congratulations to Chuanbin Su and his family on welcoming their
precious son Micki into the world.
We welcome Thomas Malachowski to the lab as a first-year graduate
student in the Bioengineering PhD program. Welcome Thomas.
Our lab is highlighted in Nature’s Technologies to watch in 2020. Thought leaders predict the tech developments that could have a big
impact in the coming year:
https://www.nature.com/articles/d41586-020-00114-4
Jennifer presents the labs work on the 3D genome and repeat instability
at the fourth international brainstorm symposium on the expanding role
of repetitive sequences in disease at the University of Florida.
https://neurogenetics.med.ufl.edu/2019/10/25/2020-fourth-international-brainstorm-symposium/
Jon’s paper is accepted at Nature Neuroscience – way to go Jon!
Thomas Gilgenast wins 2nd place for his poster presentation at the Penn
Bioengineering graduate student symposium. Congratulations Thomas!
Jennifer speaks on the lab’s work at Emory University.
Congrats to Thomas Gilgenast for his 2nd place poster at the BE Research Symposium!
Our review “On the existence and functionality of topologically
associating domains” is published in Nature Genetics
https://www.nature.com/articles/s41588-019-0561-1
Congratulations to Jonathan Beagan!
Jonathan Beagan successfully defends his thesis work and receives his
PhD. Congratulations Dr. Beagan!
Jon Beagan receives a podium short talk at the Keystone Meeting in
Genome Architecture in Space and Time in Whistler, BC March 2020.
Jennifer presents Jon’s new work exploring the 3D genome in neuronal activation at the 4DN Annual Meeting in Washington D.C.
Our collaborative work with the Blobel lab exploring 3D genome
reconfiguration after mitotic exit is published in Nature
https://www.nature.com/articles/s41586-019-1778-y. Congratulations to
co-authors Kate Titus, Thomas Gilgenast, and Daniel Emerson for their
contributions.
Jennifer presents the lab’s work at the NIH Center of Excellence in Chromatin Biology
Jennifer presents the lab’s work at the NIH/NICHD Division of Developmental Biology
Jennifer presents the lab’s research at the New York Stem Cell Translational Research meeting https://nyscf.org/events/conference/
Jennifer presents the lab’s research at Washington University St. Louis.
Our alumnus James Sun has been accepted into NYU’s PhD program and will
pursue an MD/PhD at NYU. Congratulations James!
We are delighted to welcome Michael Guo, MD PhD to the lab.
Dr. Heesun Choi joins our team as a postdoctoral scholar. Welcome Heesun!
Jennifer presents our lab’s work at MIT.
Jon Beagan is the recipient of the best poster award at the 2019 Penn
Genetics retreat. Congratulations Jon, you make us so proud!
Our team is the recipient of the National Science Foundation Emerging Frontiers in Research Innovation grant for chromatin and epigenetic engineering (2019-2023) in collaboration with Casey Brown and Arjun Raj.
Our team receives an R01 through the National Institute of Mental Health (2019-2024).
Katelyn Titus joins the lab for her Ph.D. studies in Bioengineering. Welcome, Kate!
Chuanbin Su joins the lab as a postdoctoral scholar. Welcome, Chuanbin!
Alexandria Nikish joins the lab for her Ph.D. studies. Welcome, Ali!
Linda Zhou from the Cremins lab is the recipient of an NIH F30 Grant
starting September 2019. Congratulations Linda!
Zoltan Simandi and Harshini Chandrasekhar attend the Columbia single cell sequencing analysis boot camp.
Miriam Minsk is the recipient of the best research presentation award for her summer Rachleff scholar’s research. Congratulations to Miriam and her mentor Linda Zhou!
Jon Beagan presents his work at the Neuroepigenetics interest group in the Epigenetics Institute.
Congratulations Team LADL – Ji Hun Kim, Mayuri Rege, Jackie Valeri, for their publication of Light-activated Dynamic Looping!
Linda Zhou presents her work for the Epigenetics Institute monthly seminar series.
Jennifer presents the lab’s work at the Evolution and
Function of higher-order chromosomes meeting at the Institut Pasteur in
Paris France.
Jennifer presents the lab’s work at the European Molecular
Biology Laboratory in Heidelberg, Germany.
Ji Hun Kim travels to Greece to present a podium talk on his
Light Activated Dynamic Looping technology. Congratulations Ji Hun!
Jennifer presents the lab’s work at the University of Chicago.
Jennifer presents the lab’s work at the University of Virginia
Medical School Annual Symposium: Higher-order structure and disease.
Deepak Mani joins the lab for his first rotation in the Bioengineering graduate program in Fall 2019. Welcome Deepak!
Jennifer presents the lab’s work at the Company of
Biologists Epigenetics Meeting in Sussex UK.
Thomas Gilgenast successfully defends his thesis proposal.
Thomas Gilgenast’s paper on statistical methods to call loops in 5C data
is now out in Cell Systems:
https://www.cell.com/cell-systems/pdfExtended/S2405-4712(19)30067-5
Katelyn Titus is accepted into the Bioengineering Ph.D. program and will
transition to a full time graduate student in our lab in Fall 2019.
Congratulations Kate!
Jennifer presents Mayuri, Ji Hun, and Jon’s work at the 3D genome in
gene regulation and disease meeting in Banff, Canada:
http://www.keystonesymposia.org/19X6
Jennifer presents the lab’s work at the Keystone Genome
Architecture Meeting in Banff Canada.
Congratulations to Linda Zhou on receiving her F31 NIH grant.
Congratulations to Kate Titus on her acceptance into the Bioengineering
PhD program at UPenn. Kate – we are proud of you!
Thomas Gilgenast’s manuscript was accepted at Cell Systems.
Congratulations Thomas!
We welcome Harshini Chandrashekar to the lab. Welcome, Harshini!
Kate Titus is accepted into the Genomics and Computational Biology Ph.D.
program. Congratulations Kate!
Jennifer presents the lab’s work at Duke University.
Lindsey and Thomas post a preprint to Bioarxiv on their new method,
3DeFDR, for identifying cell type-specific looping interactions with
empirical false discovery rate guided thresholding:
https://www.biorxiv.org/content/10.1101/501056v1
Jon Beagan successfully defends his thesis proposal.
Jennifer presents Linda and James’ work on the 3D genome and trinucleotide repeat expansion disorders at the joint 4DNucleome-ASCB satellite meeting in San Diego, CA.
Jennifer presents Mayuri and Ji Hun’s work on engineering loops with light at the 4D Nucleome annual meeting in San Diego, CA.
Dan Emerson gives his very first talk on a big stage at the 4D Nucleome annual meeting in San Diego, CA. Congratulations Dan!
We welcome Di Zhang, M.D./Ph.D. candidate from the Blobel lab, as a visiting
scientist this semester.
James and Linda’s work is highlighted by the NIH’s 4D Nucleome Initiative
Jon gives a talk on his work at the Epigenetics Institute retreat.
Linda presents a poster at the Epigenetics Institute Retreat.
Ravi Boya, PhD, joins us for his postdoc. Welcome, Ravi!
Jennifer presents the lab’s work at New York University.
Jennifer presents a chalk talk on Mayuri and Ji Hun’s work at the GCB graduate program.
Linda and James’ work is highlighted in the September 2018 NYSCF newsletter.
Linda Zhou, MD PhD candidate, is in the Daily Pennsylvanian!
We welcome Patrick Paglia, a work-study student, to the lab. Welcome, Patrick!
We welcome Miriam Minsk, an undergraduate student, to the lab. Welcome, Miriam!
We welcome Chunmin Ge to the lab as a senior technician. Welcome, Chunmin!
We welcome Sean Louzon to the lab for his Fall 2018 rotation. Welcome, Sean!
Linda Zhou, M.D./Ph.D. candidate, is a recipient of the 2018 Blavatnik Family Fellowship!
Jennifer presents James and Linda’s work at the Cold Spring Harbor Epigenetics meeting.
Kate Titus is promoted to Senior Computational Research Specialist. Congratulations, Kate!
Jennifer presents the lab’s work at the University of Pittsburgh.
Linda Zhou is a recipient of the Blavatnik Family Fellowship. Congratulations Linda!
Miriam Minsk is a 2018 Rachleff Scholar. Congratulations, Miriam!
Jennifer presents the lab’s work at the International Society for Stem Cell Research Annual Meeting in Melbourne, Australia.
Jennifer presents the lab’s work at the New York Stem Cell Foundation Investigators Retreat in Montauk, NY
Ji Hun and Kate’s paper 5C-ID is published in the journal Methods.
We welcome MD/PhD students Ryan Boe and Jessica Lam for their Independent Studies and Summer rotations!
Congratulations to James Sun for his acceptance into New York University’s MD program!
Sai Phyo passes his qualifying exam. Congratulations Ph.D. candidate, Sai!
Jennifer presents the lab’s work at University of Washington’s Bioengineering Department in Seattle, WA
Congratulations to Sunny Chen for her acceptance into Ohio State’s MD program!
Congratulations to Harvey Huang for his acceptance into Mayo Clinic’s MD/PhD program!
Congratulations to Jackie Valerie for her acceptance to MIT’s Biological Engineering PhD program!
Jennifer presents the lab’s work at the Twenty-Ninth Annual Kavli Frontiers of Science Symposium in Irvine, CA
Congratulations to Michael Duong for his acceptance into UPenn’s MD/PhD program!
Jennifer presents the lab’s work at the Institute for Regenerative Medicine 2018 Retreat at UPenn.
Congratulations to Heidi and Dan for their new Nature Methods paper on detecting TAD and subTAD hierarchies with graph theory.
Jennifer presents the lab’s work at the Functional Epigenomics: Epigenetics Institute Annual Conference 2018 at UPenn.
Jennifer presents the lab’s work at the AIChe International Conference on Epigenetics and Bioengineering in Miami, FL.
Jennifer presents James and Linda’s work at the International Human Epigenome Consortium Annual meeting.
Jennifer presents James, Linda, Jon and Michael’s work at Max Planck Institute.
Jennifer presents James and Linda’s work CHOP’s Mid-Atlantic Bioinformatics Conference.
Mayuri’s preview on Phanstiel et al. is published in Molecular Cell.
Jennifer presents James and Linda’s work at Penn’s Institute for Regenerative Medicine.
Congratulations to Mayuri for her Preview in Molecular Cell on the recent Phanstiel et al. paper.
Jennifer presents James and Linda’s work at the 4D Nucleome Annual Meeting.
Jennifer presents James and Linda’s work at Penn Genetics departmental retreat.
Jennifer presents James and Linda’s work at Penn’s Department of Neuroscience.
Heidi’s review on 3D genome misfolding in disease is published in Journal of Cell Biology.
Jennifer is selected as a 2018 Kavli Frontiers of Science Fellow.
Congratulations to Dr. Mayuri Rege for her new faculty position in India. We are proud of you – Godspeed!
Linda wins the UPenn Computational Genetics Training Grant! Congrats Linda!
Lindsey Fernandez joins the lab full time. Welcome, Lindsey!
Michael Tran Duong is a 2017 recipient of the Goldwater Scholarship. Congratulations Michael, we are proud of you!
Jennifer presents the lab’s work at Penn State.
Lindsey Fernandez is a recipient of the 2017 National Science Foundation Graduate Research Fellowship. Congratulations Lindsey!
Linda Zhou – MD/PhD student in the GCB program – joins the lab. Welcome Linda.
Jennifer presents the lab’s latest work at the Gladstone Institute in San Francisco, CA.
Jon’s review in WIREs Systems Biology and Medicine was one of the Top Ten accessed in 2016
We welcome Jenny Luppino, Linda Zhou, and Daniel Park to the lab for their Spring 2017 rotations. Welcome Jenny, Linda, and Daniel!
Cremins attends the Twenty-eighth Annual Kavli Frontiers of Science Symposium in Irvine, CA and is selected as a 2016 Kavli Fellow 2016.
Cremins attends the New York Stem Cell Foundation Translational Stem Cell Research conference at Rockefeller.
Cremins attends 4D Nucleome Annual meeting in San Diego, CA.
Heidi Norton’s poster wins third place at the Penn Institute for Computational Science (PICS) symposium!
Heidi Norton presents a short-talk and poster at the Penn Institute for Computational Science (PICS) symposium.
Lindsey Fernandez wins second place and a $100,000 grant in the 2016 Student Technology Prize for Primary Healthcare through Massachusetts General Hospital’s Ambulatory Practice of the Future. Congratulations, Lindsey!
We welcome Jingjing Ma to the lab as our lead genomics research scientist and administrative specialist. Welcome Jingjing!
We welcome Zhendong Cao to the lab for his Fall 2016 rotation. Welcome Zhendong!
Cremins presents the lab’s work at the Johns Hopkins University McKusick-Nathans Institute of Genetic Medicine.
Cremins presents at the 4D Nucleome consortium’s scientific webinar series.
Shawn Srolovitz, Jackie Valeri and Caroline Lachanski receive bronze, silver and gold metals, respectively, at the UPenn undergraduate research symposium!
Shawn, Jackie and Caroline present at the UPenn Summer Undergraduate Research Symposium.
Congratulations Thomas Gilgenast – recipient of a NIH Ruth L. Kirschstein Institutional National Research Service Award for predoctoral trainees!
Kate Titus joins the lab as a full time bioinformatician. Welcome, Kate.
Cremins presents at the New York Stem Cell Foundation New Innovators Retreat in Montauk, NY
Cremins lab publishes first paper examining 3-D genome folding in iPS cells
Cremins lab featured in UPenn news for their work on iPS cells and genome topology
Congratulations to Jesi Kim for her admission to Harvard Medical School’s 2016 Harvard-MIT Health Sciences and Technology (HST) program. We are proud of her for this tremendous achievement!
Congratulations to Shawn Srolovitz and Caroline Lachanski – recipients of the 2016 Little John Undergraduate Research Fellowship.
Congratulations Michael Duong – recipient of the Spring 2016 Ernest M. Brown, Jr. College Alumni Society Undergraduate Research Grant!
Caroline Lachanski is the recipient of the 2016 Benjamin Franklin Society Award
The lab’s first primary research paper is provisionally accepted in Cell Stem Cell! Congratulations to the entire iPS team (Jon Beagan, Jesi Kim, Thomas Gilgenast, Heidi Norton and Gui Hu).
Jon’s review paper “CRISPR/Cas9 genome editing throws descriptive 3-D genome folding studies for a loop” is accepted in WIREs Systems Biology and Medicine.
Ji Hun Kim joins the lab as a Postdoctoral scholar. Welcome, Ji Hun.
We are hiring: two full-time computational biology positions available!
Jon Beagan, Jesi Kim and Thomas Gilgenast present posters at the Penn Epigenetics Symposium
Caroline Lachanski receives College House Research Fellowship
Jon Beagan and Heidi Norton represent the Cremins Lab in Penn Engineering magazine.
Mayuri Rege joins the lab as a Postdoctoral scholar. Welcome, Mayuri.
Shawn Srolovitz wins Vagelos Undergraduate Research Grant
Cremins presents at Hartwell Foundation in Charlotte, NC
Cremins presents at Jackson Laboratories at Workshop on 3D Genome Mapping Technology
Cremins presents at the NIH 4D Nucleome Kick-off meeting in Bethesda, MD
Thomas Gilgenast passes his qualifying exam. Congratulations, Ph.D. candidate Gilgenast!
Heidi Norton passes her qualifying exam. Congratulations, Ph.D. candidate Norton!
Cremins lab is selected for the 2015 NIH New Innovator Award
We are hiring – open position for a senior data scientist or computational postdoc
Caroline Lachanski joins the lab as an undergraduate research scholar. Welcome, Caroline.
Hansini Upadhyay begins as a research technician at Dana Farber Cancer Institute in Boston, MA. Congratulations Hansini – we all wish you the best.
Daniel Gillis joins the lab as a full time master’s student. Welcome, Daniel G.
Jon Beagan passes his qualifying exam. Congratulations, Ph.D. candidate Beagan!
Zach Plona starts medical school at Thomas Jefferson University. Congratulations Zach – we wish you all the best.
Cremins presents in Bar Harbor, Maine at Jackson Laboratories
Cremins presents in Hong Kong, China at the Genome Architecture in Cell Fate and Disease Gordon Research Conference
Jesi Kim joins the lab as a full time bioinformatician. Welcome, Jesi.
Daniel Gillis, Penn BE class of 2015, joins the lab for a summer of writing code. Welcome, Daniel G.
Aryeh Metzger joins the lab for a summer rotation before starting his MD/PhD training at Penn. Welcome, Aryeh.
Hansini Upadhyay graduates from Drexel University with a masters in Biomedical Engineering. Congratulations, Hansini.
Cremins presents in Montauk, NY at the New York Stem Cell Foundation Innovators Retreat
Andrew Kane begins graduate school at Harvard University: Molecules, Cells and Organisms PhD training program. Congratulations Andrew – we all wish you the best.
Gui Hu joins the lab as a Research Specialist B. Welcome Gui.
Congratulations to Michael Duong on his selection as Methacton High School Class of 2015 Valedictorian
We welcome Bioengineering undergraduate student Shawn Srolovitz to the Cremins lab
We are proud to announce that Heidi Norton has won the 2015 National Science Foundation Graduate Research Fellowship!
Zach, Jon present the Cremins lab’s first poster in Steamboat Springs, CO at Keystone Transcriptional and Epigenetic Influences on Stem Cell States Meeting
Jennifer presents in Steamboat Springs, CO at Keystone Transcriptional and Epigenetic Influences on Stem Cell States Meeting
Jennifer presents at the Broad Institute in Cambridge, MA at the Cell Systems LabLinks conference
Jennifer has been selected as a 2015 Alfred P. Sloan Foundation Fellow
We are delighted to welcome Jon Beagan to the lab. Welcome, Jon.
Heidi Norton – from UPenn’s NIBIB-HHMI interfaces program – joins the lab.
Jennifer presents in Big Sky, Montana at Keystone Precision Genome Engineering and Synthetic Biology Meeting
Cremins Lab featured in UPenn News
Jennifer has been named a New York Stem Cell Foundation – Robertson Investigator
The Cremins Lab receives funding from the New York Stem Cell Foundation
We welcome Genomics and Computational Biology student Emily Shields to the Cremins lab
Cremins Lab announces new lab members
Navigate to the “People” tab to see some images of the new lab team.