SjD Laboratory

Welcome to the Cancer Genomics and Systems Biology Group! 

Our group develops and applies genomics, systems biology, and mathematical modeling approaches to understand the biology of cancer and use that knowledge for better diagnosis, stratification, and treatment of the disease. 

We are part of the Rutgers CINJ Precision Medicine Initiative and Center for Systems and Computational BiologyWe closely collaborate with several research groups on different aspects of basic and clinical cancer research. Please see our Research and Publications page for more details on the recent projects.

Members of our lab have diverse background, with training in computer science, mathematics, engineering, genomics, and molecular biology. Graduate students at Rutgers are encouraged to enquire about possibility of a rotation project. 

Applicants seeking postdoctoral position in cancer genomics and computational biology should contact me over email including CV, research statement, recent publications, and contact details of references. Please find our address on the Contact page. 

Postdoctoral Position Available

News and updates

                    June 1, 2021
We welcome Jay Virani, A Sundari and Xavier Jones in the group!

                    Apr 27, 2021
Our project grant on BRCAness will be funded!
                   Feb 26, 2021
Antara's paper on tumor heterogeneity is coming out shortly!

                    Feb 8, 2021
Xiaoju's paper on microplastic-related mutational signatures in human cancers is in press! Press release is coming.

                    Oct 20, 2020
Lucian's paper is accepted in Nature Communications!

                   Oct 9, 2019
Bassel has received ACTS fellowship - Congratulations!

                    Sep 17, 2019
Anchal's paper on non-genetic heterogeneity and tumor evolutionary dynamics is accepted in Cell Reports!

                      Aug 1, 2019
Bassel Ghaddar and Antara Biswas join our group. Welcome!

                    Aug 1, 2019
Our lab is one of the winners of the 10X Genomics Single Cell Genomes Scientific Challenge!

May 29, 2019
Erin Dahl from the Pacific Univ. joins our group via the REU DIMACS program Welcome Erin!. 

May 2, 2019
Our paper with James DeGregori and Alex Liggett on detection of ultra-low frequency somatic mutations is accepted for publication. 

Apr 15, 2019
Xiaoju Hu joins the lab .. welcome!!

April 1, 2019
We thank NIH for supporting our research. 

Sep 6, 2018
Yizhou's paper on DYNLL1 is accepted in Nature!

Aug 10, 2018
Abdul's work is scheduled for the next issue of Nat Genetics !

Aug 9, 2018
Neil's work is accepted in Trends in Cancer.

Mar 28, 2018
Anchal's paper on regulatory alterations in Pan-cancer genomes is in press. Congrats!

Mar 26, 2018
Vinod Singh joins the group. Welcome Vinod! 

Dec 16, 2017
Subho giving a talk at the Institute for Quantitative Biomedicine.

Sep 13, 2017
Subho giving a talk at the Innovative Statistics and Machine Learning for Precision Medicine conference at Univ. Minnesota.

July 30, 2017
Subho giving a talk at the RECOMB-CCB meeting. 

June 23, 2017
Kyle's paper is accepted in Nature Str Mol Biol. ! Very well done! 

June 22, 2017
Winners of the NCI-Sage IACM Workshop announced, and ... Yeeh! 

May 25, 2017
Anchal Sharma receives Gala Award for her work on regulatory changes in cancer genomes. Congratulations!

May 15, 2017
Roxanne Casio and Matthew Feigelis join the group. Welcome!

May 15, 2017
Subho giving a talk at GLBio2017 on clonal evolutionary dynamics of lung cancer.

Mar 23, 2017
Prof. Hiroshi Haeno visiting us from Japan. Looking forward to it.

Mar 21, 2017
Kimiyo's paper is accepted in Cancer Research!

Mar 17, 2017
Kyle successfully defended his thesis. Congratulations Dr. Smith!

Mar 13, 2017
Subho gave a talk in Princeton on evolutionary dynamics of lung cancer.

Dec 20, 2016
Mahish Kewalramani got an early offer from Duke University. Proud of you!

Sep 7, 2016
Subho giving an invited talk at Japanese Society of Mathematical Biology in University of Kyushu, Japan.

June 3, 2016
Vinod's paper on somatic duon mutations, those that changes both the sequence and expression of gene products in cancer is now published.

May 16, 2016
Subho giving an invited talk at the ISCB Canadian Computational Biology Conference in Toronto.

May 2, 2016
Subho giving a lecture at the PQG seminar series at Harvard School of Public Health.

Mar 3, 2016
We are proud to receive continued patronage from the Boettcher Family for our research.

Feb 15, 2016
Vinod's paper on the landscape of somatic mutations in benign tissues is published in Nucleic Acid Research.

Feb 1, 2016
Our group moves to Rutgers Cancer institute of New Jersey.

Nov 20, 2015
Our paper SomVarIUS: Somatic variant identification from unpaired tissue samples is now published.

Oct 26, 2015
Subho gave a talk on signatures of accelerated somatic evolution in Cold Spring Harbor Genome Informatics meeting.

May 01, 2015
Kyle's paper on signatures of accelerated somatic evolution in different cancer types is now online.

Dec 29, 2014
Anna's paper is accepted in Nature. Yehh!

Dec 12, 2014
Kyle and Subho giving talks at the Rocky conference in Snowmass. 

July 01, 2014
Kyle Smith joins the group as a graduate student! Welcome Kyle!

June 05, 2014
It is an honor to be a part of the Boettcher family!

June 5, 2014
Ondrej's paper is published today in PLoS Computational Biology. Looks cool! 

Mar 25, 2014
Our paper on somatic mosaicism is accepted in Cell Reports. Thanks everyone for constructive comments! 

Mar 12, 2014
We welcome Prof. Hiroshi Haeno as a short-term visitor in our group! Looking forward to some math modeling. 

Dec 22, 2013
Rita's paper "Variability in DNA methylation defines novel epigenetic subgroups of DLBCL associated with different clinical outcomes" is accepted for publication in Blood. Yeeh!

Dec 10, 2013
Mohamed Abdalla joins the group through Denver STaRS program. Welcome Mohamed!

Oct 1, 2013
Subho is invited to be a faculty member of the Department of Biostatistics and Informatics at the Colorado School of Public Health. We are looking forward to working together with statistics-gurus.

Sep 6, 2013
Brent's paper 'CruzDB: software for annotation of genomic intervals with UCSC genome-browser database' has been accepted for publication in Bioinformatics.. We are excited that the Bioinformatics community is already liking it.

July 29, 2013
We are looking forward to the summer party this Saturday! 

July 25, 2013
Vinod Yadav joins the group from Institute of Genomics and Integrative Biology. Welcome Vinod!

July 1, 2013
A good start of the week! 'The dilemma of choosing the ideal permutation strategy while estimating statistical significance of genome-wide enrichment' - is accepted for publication in Briefings in Bioinformatics. It has been a pleasure working with you, Brent and Katerina :-)

June 24, 2013
Our paper ‘Loss of heterozygosity preferentially occurs in early replicating regions in cancer genomes’ is published as a Featured Article in Nucleic Acids Research. Many thanks to our colleagues who gave us outstanding feedback on this work!

June 3, 2013

Laura Stevens joins the group from Univ. Colorado Boulder. Welcome Laura!

May 28, 2013

Our paper ‘Copy neutral loss of heterozygosity is more frequent in older ovarian cancer patients’ is published as advanced online publication in Genes Chromosomes and Cancer. It has been highlighted by MDLinx as a spotlight article. 

Mar 21, 2013

The book 'Stress-Induced Mutagenesis' is out. Our Chapter-13: Revisiting Mutagenesis in the Age of High-Throughput Sequencing - is looking nice! Thanks David Mittelman!

Jan 10, 2013
Finally! Our paper 'Aberration in DNA methylation in B-cell lymphomas has a complex origin and increases with disease severity' is now published in PLoS Genetics. It has been highlighted in Science Daily and C3 magazine!

Dec 7, 2012

Presenting at Rocky 2012 in Snowmass. It is a great meeting with excellent talks by colleagues from around the country.

Dec 06, 2012

'DNA replication timing and higher-order nuclear organization determine single-nucleotide substitution patterns in cancer genomes' is accepted for publication in Nature Communications. well done Lin!

Nov 26, 2012

Emmanuel's paper 'Cellular crowding imposes global constraints on the chemistry and evolution of proteome' is accepted for publication in PNAS. Exciting!

Nov 11, 2012

Subho becoming a member of the Computational Biosciences Training Program and also University of Colorado Cancer Center at AMC.  

Sep 1, 2012

The lab starts on the third floor of RC2 in the Anschutz Medical Campus of the University of Colorado.