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RESEARCH


OUR GROUP HAS PIONEERED THE DEVELOPMENT OF SINGLE CELL GENOME SEQUENCING
TECHNOLOGIES, WHICH WE APPLY TO UNDERSTAND COMPLEX BIOLOGICAL PROCESSES IN HUMAN
CANCERS, INCLUDING TUMOR INITIATION, INVASION, METASTASIS AND THERAPEUTIC
RESISTANCE. WE STUDY CANCER AS AN EVOLUTIONARY PROCESS IN WHICH CLONES UNDERGO
SELECTION AND EXPANSION IN RESPONSE TO SELECTIVE PRESSURES. WE UNDERSTAND THE
TUMOR AS A COMPLEX ECOSYSTEM WHICH IS MAINTAINED BY INTRICATE INTERACTIONS
BETWEEN THE TUMOR CELLS AND STROMAL CELL TYPES. OUR MISSION IS TO GAIN NEW
KNOWLEDGE OF CANCER EVOLUTION THAT CAN BE EXPLOITED TO IMPROVE THE QUALITY OF
LIFE AND DECREASE MORBIDITY IN CANCER PATIENTS. AT MD ANDERSON WE ARE UNIQUELY
POSITIONED TO TO TRANSLATE OUR GENOMIC TECHNOLOGIES INTO THE CLINIC, WHERE THEY
ARE POISED TO MAKE A MAJOR IMPACT ON EARLY DETECTION, DIAGNOSTICS AND
THERAPEUTIC STRATEGIES IN CANCER PATIENTS.



SINGLE CELL GENOMICS



CANCER EVOLUTION



LIQUID BIOPSY GENOMICS



COMPUTATIONAL BIOLOGY




THE TEAM

NICHOLAS NAVIN

Principal Investigator

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EMI SEI

Principal Research Scientist

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SHANSHAN BAI

Research Laboratory Manager

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KAILE WANG

Instructor

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TUAN TRAN

Research Laboratory Manager

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JEROME LIN

Computational Scientist

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JIANZHUO LI

Research Investigator

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MIN HU

Computational Scientist

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ANNA K. CASASENT

Computational Scientist

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ZHENNA XIAO

Postdoctoral Fellow

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RUNMIN WEI

Postdoctoral Fellow

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YUEHUI ZHAO

Postdoctoral Fellow

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NICOLAAS BAUDOIN

Postdoctoral Fellow

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RACHEL DITTMAR

Postdoctoral Fellow

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AISLYN SCHALCK

Graduate Student

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DARLAN MINUSSI

Graduate Student

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TAPSI KUMAR

Graduate Student

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JAKE LEIGHTON

Graduate Student

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RUI YE

Graduate Student

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YUN YAN

Graduate Student

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HANGHUI YE

Graduate Student

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JIE YE

Graduate Student

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YIYUN LIN

Graduate Student

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SIYUAN HE

Graduate Student

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JUNKE (KRIS) WANG

Graduate Student

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ALUMNI

Jill Waters, Laboratory Coordinator
Yong Wang, Ph.D, Senior Postdoctoral Fellow
Charissa Kim, MD / Ph.D. Student
Ruli Gao, Ph.D, Senior Postdoctoral Fellow
Marco Leung, Ph.D. Student
Naveen Ramesh, Ph.D Student
Pei-Ching Tsai, Senior Research Assistant
Alexander Davis, Ph.D. Student
Yuwei Lin, Masters Student
Mashiat Rabbani, Masters Student
Haowei Du, Masters Student
Cheng Peng, Masters Student






PICTURES




SEE MORE PHOTOS


SELECTED PUBLICATIONS




BREAST TUMOURS MAINTAIN A RESERVOIR OF SUBCLONAL DIVERSITY DURING EXPANSION

Nature
 * Darlan C. Minussi
 * Michael D. Nicholson
 * Hanghui Ye
 * Alexander Davis
 * Kaile Wang
 * Toby Baker
 * Maxime Tarabich
 * Emi Sei
 * Haowei Du
 * Mashiat Rabbani
 * Cheng Peng
 * Min Hu
 * Shanshan Bai
 * Yu-wei Lin
 * Aislyn Schalck
 * ...
 * Nicholas Navin

2021Mar

CHEMORESISTANCE EVOLUTION IN TRIPLE-NEGATIVE BREAST CANCER DELINEATED BY
SINGLE-CELL SEQUENCING

Cell
 * Charissa Kim
 * Ruli Gao
 * Emi Sei
 * Rachel Brandt
 * Johan Hartman
 * Thomas Hatschek
 * Nicola Crosetto
 * Theodoros Foukakis
 * Nicholas Navin

2018Apr

MULTICLONAL INVASION IN BREAST TUMORS IDENTIFIED BY TOPOGRAPHIC SINGLE CELL
SEQUENCING

Cell
 * Anna K. Casasent
 * Ruli Gao
 * Emi Sei
 * William Pangburn
 * Tod Casasent
 * Anna K. Casasent
 * FundaMeric Bernstam
 * Mary E.Edgerton
 * Nicholas Navin

2018Jan

PUNCTUATED COPY NUMBER EVOLUTION AND CLONAL STASIS IN TRIPLE-NEGATIVE BREAST
CANCER

Nature Genetics
 * Ruli Gao
 * Alexander Davis
 * Thomas O McDonald
 * Emi Sei
 * Xiuqing Shi
 * Yong Wang
 * Anna Casasent
 * Jill Waters
 * Hong Zhang
 * Franziska Michor
 * Nicholas Navin

2016Oct

CLONAL EVOLUTION IN BREAST CANCER REVEALED BY SINGLE NUCLEUS GENOME SEQUENCING

Nature
 * Yong Wang
 * Jill Waters
 * Marco L. Leung
 * Anna Unruh
 * Whijae Roh
 * Xiuqing Shi
 * Ken Chen
 * Paul Scheet
 * Selina Vattathil
 * Han Liang
 * Hong Zhang
 * Rui Zhao
 * Franziska Michor
 * Funda Meric-Bernstam
 * Nicholas Navin

2014Jul


SEE ALL PUBLICATIONS


LAB NEWS

 * 2021
   
   Appointed to the Grady F. Saunders, Ph.D. Distinguished Professorship for
   Molecular Biology (MDACC NEWS)
   
   
   2021 AACR Award for Outstanding Achievement in Basic Cancer Research (AACR)
   

 * 2020
   
   Five MD Anderson researchers elected AAAS Fellows (MDACC NEWS)
   

 * 2019
   
   MD Anderson President’s Award for Research Excellence (MDACC NEWS)
   

 * 2018
   
   Single-Cell Study Details Development of Chemoresistant Breast Cancer (Genome
   Web)
   
   
   2018 Dallas Forth Worth Living Legend Faculty Achievement Award in Basic
   Research (MDACC NEWS)
   

 * 2017
   
   Jack and Beveraly Randall Prize for Excellence in Cancer Treatment (MDACC
   NEWS)
   

 * 2016
   
   Monovar drills down into the cancer genome(Rice News)
   

 * 2015
   
   From the Background to the Forefront (Genome Web)
   
   
   Single-Cell Sequencing Pioneer Wins AAAS Wachtel Cancer Research Award (AAAS,
   NIH)
   

 * 2014
   
   Subclones - Go Forth and Mutate (Nature Rev Clinical Oncology)
   
   
   Cancer: One Cell At a Time (Nature)
   
   
   With New Single-Cell Sequencing Approach, Researchers Examine Tumor Evolution
   and Mutation Rates (Genome Web)
   
   
   Same Cancer, Different Time Zone (MD Anderson News)

 * 2013
   
   Tracking the Evolution of Cancer, Cell by Cell (Quanta / Scientific American)
   
   
   Cancer Shows Strength Through Diversity (Nature)
   
   
   The Downside to Diversity (Science)
   
   
   Genomics: The Single Life (Nature)
   


CODE


WE STRIVE TO DEVELOP INNOVATIVE, WELL-TESTED, AND WELL-DOCUMENTED TOOLS FOR
GENOME RESEARCH.

COPYKAT: DELINEATING COPY NUMBER AND CLONAL SUBSTRUCTURE IN HUMAN TUMORS FROM
SINGLE-CELL TRANSCRIPTOMES  (NATURE BIOTECHNOLOGY)

 * Ruli Gao
 * Bai Shanshan
 * Ying C. Henderson
 * Yiyun Lin
 * Aislyn Schalck
 * Yun Yan
 * Tapsi Kumar
 * Min Hu
 * Emi Sei
 * ...
 * Nicholas Navin

2021JAN

SCOPIT: SAMPLE SIZE CALCULATIONS FOR SINGLE-CELL SEQUENCING EXPERIMENTS  (BMC
BIOINFORMATICS)

Weblink
 * Alexander Davis
 * Ruli Gao
 * Nicholas Navin

2019Nov

SIFIT: INFERRING TUMOR TREES FROM SINGLE-CELL SEQUENCING DATA UNDER FINITE-SITES
MODELS   (GENOME BIOLOGY)

 * Hamim Zafar
 * YAnthony Tzen
 * Nicholas Navin
 * Ken Chen
 * Luay Nakhleh

2017May

MONOVAR: SINGLE NUCLEOTIDE VARIANT DETECTION IN SINGLE CELLS  (NATURE METHODS)

 * Hamim Zafar
 * Yong Wang
 * Luay Nakhleh
 * Nicholas Navin
 * Ken Chen

2016Jun


PROTOCOLS

 * DISSOCIATION OF NUCLEAR SUSPENSIONS FROM HUMAN BREAST TISSUES

 * DISSOCIATION OF SINGLE CELL SUSPENSIONS FROM HUMAN BREAST TISSUES

 * SINGLE NUCLEUS SEQUENCING FOR DNA COPY NUMBER PROFILING

 * SINGLE NUCLEUS EXOME SEQUENCING

 * SINGLE NUCLEUS TARGETED SEQUENCING


VIDEOS




MEET DR. NAVIN AND HIS RESEARCH PROGRAM IN SINGLE CELL CANCER GENOMICS.




‘SEQUENCING THE SINGLE CANCER CELL’ (2015) ‘ADVENTURES IN GENOMICS’.




‘SEQUENCING THE SINGLE CELL’ (2015) ‘ADVENTURES IN GENOMICS’.


FUNDING SUPPORT

AMERICAN CANCER SOCIETY

LEFKOFSKY FAMILY FOUNDATION

NATIONAL CANCER INSTITUTE (NCI)

SIMON FAMILY FOUNDATION

CHAN ZUCKERBERG INITIATIVE

MOON SHOTS PROGRAM

PROSTATE CANCER FOUNDATION

DAMON RUNYON-RACHLEFF INNOVATION AWARD

NATIONAL INSTITUTE OF HEALTH (NIH)

THE CANCER PREVENTION AND RESEARCH INSTITUTE OF TEXAS


WE ARE VERY GRATEFUL FOR YOUR GENEROUS FUNDING SUPPORT


JOBS


POSTDOC IN COMPUTATIONAL BIOLOGY

We seek a talented individual with a strong background in computational biology,
data science or bioinformatics. This individual will develop methods to analyze
large-scale single cell sequencing datasets to understand cancer evolution. The
ideal candidate will have experience in Unix/Linux, scripting languages (Perl,
Python), statistical languages (R, Matlab) and experience with next-generation
sequencing data analysis.



Requirements: Ph.D. in Bioinformatics, Computational Biology, Biostatistics or
Data Science


POSTDOC IN CANCER BIOLOGY

The Navin laboratory has an open position for a postdoctoral fellow in cancer
biology in the department of Genetics at the MD Anderson Cancer Center in
Houston, TX.  We seek a talented individual with a strong background in
experimental molecular biology and cancer biology techniques. This individual
will work on projects that use single cell DNA and RNA sequencing to study
cancer evolution, including invasion, metastasis or therapeutic resistance.  The
ideal candidate will have strong scientific writing skills, experience in
genomics and computational biology.



Requirements: Ph.D. in Molecular Biology, Genomics or Cancer Biology


SENIOR RESEARCH ASSISTANT

The CPRIT Single Cell Genomics Center and Navin laboratory are seeking a Senior
Research Assistant that will work on the processing human tissue samples and
prepare them for various single cell sequencing library preparations (10x
Genomics), including DNA, RNA and ATAC data. Please see the description for more
details.





Requirements: BS in natural sciences or related field with 3+ years experience.

Preferred: MS or Ph.D. in natural sciences or related field with experience in
NGS, qPCR, PCR and tissue culture experience.

 

To apply please send a CV and cover letter to Nicholas Navin at 'nnavin' (at)
mdanderson (dot) org.


CONTACT US

NICHOLAS NAVIN, PROFESSOR

DEPARTMENT OF GENETICS
THE UNIVERSITY OF TEXAS MD ANDERSON CANCER CENTER
6767 BERTNER AVE. ROOM BSRB S15.8412
HOUSTON, TX, 77030

nnavin (at) mdanderson.org


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© Navin Lab 2018
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 * The University of Texas MD Anderson Cancer Center
 * mdanderson Cancer Center for Genetic Discovery