Michael B. Mann, Ph.D.

Geneticist

email | ResearchGate | ORCID profile | GitHub | NCBI My Bibliography

EDUCATION

Doctor of Philosophy in Genetics. Case Western Reserve University, Cleveland, OH, USA. 2000 – 2005.

Master of Science in Biological Sciences. California State Polytechnic University, Pomona, Pomona, CA, USA. 1999 – 2000.

Bachelor of Science in Biology. California State Polytechnic University, Pomona, Pomona, CA, USA. 1995 – 1998.

RESEARCH EXPERIENCE

H. Lee Moffitt Cancer Center, Tampa, FL, USA. Principle Investigator of the Skin Oncogenomics Lab and Assistant Member, Department of Molecular Oncology, Cancer Biology and Evolution Program, Department of Cutaneous Oncology, and Donald A. Adam Melanoma and Skin Cancer Center of Excellence for Projects in Non-Melanoma Skin Cancer H. Lee Moffitt Cancer Center. 2016-2023.

University of South Florida, Tampa, FL, USA. Assistant Professor, Department of Oncological Sciences Morsani College of Medicine and Courtesy Assistant Professor, Tampa, FL, USA. Department of Cell Biology, Microbiology and Molecular Biology. 2017-2023.

Houston Methodist Research Institute, Houston, TX, USA. Senior Research Associate, Cancer Research Program. Neal G. Copeland, PhD and Nancy A. Jenkins, PhD Laboratory. 2011 – 2016.

Institute of Molecular & Cell Biology, Republic of Singapore. Post-doctoral Research Associate, Mammalian Genetic Laboratory. Neal G. Copeland, PhD and Nancy A. Jenkins, PhD Laboratory. 2008 – 2011.

Institute of Molecular & Cell Biology, Republic of Singapore. Post-doctoral Research Fellow, Mammalian Genetic Laboratory. Neal G. Copeland, PhD and Nancy A. Jenkins, PhD Laboratory. 2006 – 2008.

National Cancer Institute - Frederick, Frederick, MD, USA. Cancer Research Training Award Fellow, Mouse Cancer Genetics Program. Neal G. Copeland, PhD and Nancy A. Jenkins, PhD Laboratory. 2005 – 2006.

PROFESSIONAL MEMBERSHIPS, ACTIVITIES, SERVICE, AWARDS AND HONORS

Active Member, American Association of Cancer Research, since 2003.

Member, The Society for Melanoma Research, since 2017.

Member, Genetics Society of America, since 2017.

Member, Society for Investigative Dermatology, since 2017.

USF/Moffitt IACUC committee member, 2022 – 2023

Research Safety Committee, 2018 – 2023

Keynote “Harnessing Genomics for Future Cancer Care” by an American Cancer Society Funded Moffitt Researcher at The New Wave of Cancer Research and Treatment Luncheon hosted by the American Cancer Society, Nov 2019.

Early Career Reviewer (ECR) for MONC Study Section Review at the Center for Scientific Review, National Institutes of Health. February 2019.

The Donald A. Adam Melanoma and Skin Cancer Center of Excellence Pilot Funding for Projects in Non-Melanoma Skin Cancer. August 2020.

Moffitt Skin Cancer SPORE Career Enhancement Program Award. August 2017.

Houston Methodist Institute for Academic Medicine Award for Excellence in Peer Reviewed Publication, Apr 2016.

Selected participant at the 24^th Annual Short Course on Experimental Models of Human Cancer at The Jackson Laboratory, Bar Harbor, ME, Aug 2015.

AACR-Millennium Scholar-in-Training Award Recipient in recognition of promising cancer research and the submission of a meritorious proffered paper selected for presentation at the AACR Annual Meeting, Apr 2013.

NCI Cancer Research Training Award (CRTA) Fellow in the Mouse Cancer Genetics Program at theNational Cancer Institute-Frederick. Sept 2005 – Sept 2006.

NIH Predoctoral Fellowship in Genetics, Department of Genetics, 2003 – 2004.

NIH Predoctoral Fellowship in Human Genetics, Department of Genetics, CWRU, 2002 – 2003.

TEACHING EXPERIENCE

Course Director for Moffitt/USF Cancer Biology PhD Program course: PCB 9631: Advances in Cancer Biology Research, Spring semester, since 2020.

Faculty facilitator for Moffitt/USF Cancer Biology PhD Program course: PCB6932: Bioethics for Cancer Researchers, Since 2018.

Faculty lecturer for Moffitt/USF Cancer Biology PhD Program course: PCB 6205: Cancer Biology III - Cancer Genomics and Drug Discovery, Since 2018.

77th Annual Society for Investigative Dermatology Meeting, Chicago, Illinois, USA. CME presenter. May 2019. Society for Melanoma Research International Congress, San Francisco, CA, USA. CME presenter. Nov 2015.

Houston Methodist Research Institute Cancer Center Symposium, Houston, TX, USA. CME Faculty. 2014 – 2015.

Institute of Molecular & Cell Biology Student Outreach (STUDOR) Program, Republic of Singapore. Lecturer, Mammalian Genetics2007.

California State Polytechnic University, Pomona, CA, USA. Graduate Teaching Associate, Biology of Cancer, Genetics Laboratory, and Biology Laboratory, Department of Biological Sciences. Jan 1999 – 2000.

SELECTED ORAL PRESENTATIONS

Mann MB. Discovering new skin cancer drivers using ancient tools. 14th International Skin Carcinogenesis Conference, Tampa, FL, USA 14-17 October 2021.

Mann MB. Cutaneous cancer driver discovery using transposon insertional mutagenesis models. University of Auckland, Bioinformatics Institute Seminar, Auckland, New Zealand, 22 Jun 2017.

Mann MB. Cutaneous cancer driver discovery using transposon insertional mutagenesis models. University of Otago, Department of Biochemistry Seminar Series, Dunedin, Otago, New Zealand, 20 Jun 2017.

Mann MB. Harnessing Transposon Mutagenesis for Melanoma Research. Society for Melanoma Research 2015 International Congress, San Francisco, CA, USA, 18–21 Nov 2015.

Mann MB. Cooperating Oncogenic Drivers in a Preclinical Myeloid Leukemia Model. Houston Methodist Cancer Symposium, Houston, Texas, USA, 19 Jun 2015.

Mann MB. Leukemogenic Pathway Discovery using Sleeping Beauty Mutagenesis. Houston Methodist Cancer Symposium, Houston, Texas, USA, 14 Apr 2014.

Mann MB, Adams DA, Copeland NG and Jenkins NA. Melanoma Gene Discovery: Genomic and Genetic Approaches. 10th Annual Otago Genomics Facility Meeting, University of Otago, Department of Biochemistry Seminar Series, Dunedin, Otago, New Zealand, 18 Feb 2011.

Mann MB, Copeland NG and Jenkins NA. Harnessing Transposons for Cancer Gene Discovery. Emerging Mutagenesis Strategies Symposium at the ComBio2008 meeting, Canberra, Australian Capital Territory, Australia, 21–25 Sept 2008.

SELECTED ABSTRACTS

Contreras-Sandoval AM and Mann MB. "Harnessing Sleeping Beauty transposon mutagenesis to model tumor heterogeneity in melanoma preclinical models". Society for Melanoma Research 16th International Congress, Salt Lake City, UT. doi:10.1111/pcmr.12834.

Newberg JY, Mann KM, Mann MB. Prioritizing cancer gene drivers defined in large-scale cancer genome analyses using the SBCDDB. AACR Annual Meeting 2018. American Association for Cancer Research Annual Meeting in Chicago, Illinois, USA, 2018 Apr 14–18 (Poster Presentation). Abstract Number: 18-A–6401-AACR. doi:10.1158/1538-7445.AM2018-2356.

Newberg JY, Jenkins NA, Copeland NG, Mann KM, Mann MB. An integrative oncogenomic analysis tool for defining driver genes in Sleeping Beauty mouse models of human cancer. 2017 Cancer Biology & Evolution Symposium, Moffitt Cancer Center. Tampa, Florida, USA, 12 Jun 2017 (Poster presentation).

Newberg JY, Jenkins NA, Copeland NG, Mann KM, Mann MB. An integrative oncogenomic analysis tool for defining driver genes in Sleeping Beauty mouse models of human cancer. 2017 Moffitt Scientific Symposium, Moffitt Cancer Center. Tampa, Florida, USA, 4 May 2017 (Poster presentation).

Mann MB, Mann KM, Newberg JY, Black MA, Jenkins NA, and Copeland NG. Cooperating Oncogenic Myeloid Leukemia Drivers Revealed By Single Cell Genome Sequencing. 24^th Annual Short Course On Experimental Models Of Human Cancer, The Jackson Laboratory, Bar Harbor, ME, 2015 Aug 15–22.

Mann KM , Newberg JY, Navin NE, Adams DA, Jenkins NA, Copeland NG, and Mann MB. Sleeping Beauty uncovers cooperating driver genes in a preclinical mouse model of myeloid leukemia. American Association for Cancer Research Annual Meeting in Philadelphia, PA, 2015 Apr 20 (Oral Presentation), [abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18–22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 2893. doi:10.1158/1538–7445.AM2015–2893

Mann MB, Black MA, Ward JM, Bosenberg MW, McMahon MA, Print CG, Adams DJ, Copeland NG and Jenkins NA. Sleeping Beauty mutagenesis identifies genes and pathways that cooperate with Braf^V600E in melanoma initiation and progression. Genome-Based Discovery in Human Cancer Minisymposium at the American Association for Cancer Research Annual Meeting in Washington D.C., Apr 2013 (Oral presentation). [abstract]. In: Proceedings of the 104^thAnnual Meeting of the American Association for Cancer Research; 2013 Apr 6–10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract number 1116. doi: 10.1158/1538–7445.AM2013–1116

PUBLICATIONS

2022

Aria Vaishnavi, Joseph Juan, Michael T. Scherzer, J. Edward VanVeen, Christopher Stehn, Christopher S. Hackett, Adam Dupuy, Steven A. Chmura, Louise van der Weyden, Justin Y. Newberg, Karen M. Mann, Annie Liu, Alistair G. Rust, William A. Weiss, David J. Adams, Allie Grossmann, Michael B. Mann, Martin McMahon. Transposon Mutagenesis Reveals RBMS3 as a Promoter of Malignant Progression of BRAFV600E-Driven Lung Tumorigenesis. bioRxiv 2022.02.28.482366; Cancer Res. doi: https://doi.org/10.1158/0008-5472.CAN-21-3214. Open Access Manuscript: PDF.

Aria Vaishnavi, Joseph Juan, Michael T. Scherzer, J. Edward VanVeen, Christopher Stehn, Christopher S. Hackett, Adam Dupuy, Steven A. Chmura, Louise van der Weyden, Justin Y. Newberg, Karen M. Mann, Annie Liu, Alistair G. Rust, William A. Weiss, David J. Adams, Allie Grossmann, Michael B. Mann, Martin McMahon. Transposon Mutagenesis Reveals RBMS3 as a Promoter of Malignant Progression of BRAFV600E-Driven Lung Tumorigenesis. bioRxiv 2022.02.28.482366; bioRxiv. doi: https://doi.org/10.1101/2022.02.28.482366. Open Access Preprint: PDF.

2021

Aziz Aiderus, Justin Y. Newberg, Liliana Guzman-Rojas, Ana M. Contreras-Sandoval, Amanda L. Meshey, Devin J. Jones, Felipe Amaya-Manzanares, Roberto Rangel, Jerrold M. Ward, Song-Choon Lee, Kenneth Hon-Kim Ban, Keith Rogers, Susan M. Rogers, Luxmanan Selvanesan, Leslie A. McNoe, Neal G. Copeland, Nancy A. Jenkins, Kenneth Y. Tsai, Michael A. Black, Karen M. Mann, Michael B. Mann. Transposon mutagenesis identifies cooperating genetic drivers during keratinocyte transformation and cutaneous squamous cell carcinoma progression PLoS Genet 17(8): e1009094. at https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1009094. Published online before print August 16, 2021. doi:https://doi.org/10.1371/journal.pgen.1009094. PMID: 34398873. Open Access Manuscript: PDF. Data: 1 | 2 | 3 | 4 | 5 | 6 | 7

Aziz Aiderus, Ana M. Contreras-Sandoval, Amanda L. Meshey, Justin Y. Newberg, Jerrold M. Ward, Deborah Swing, Neal G. Copeland, Nancy A. Jenkins, Karen M. Mann, and Michael B. Mann. Promoterless Transposon Mutagenesis Drives Solid Cancers via Tumor Suppressor Inactivation. Cancers 2021, 13(2), 225; https://doi.org/10.3390/cancers13020225. PMID: 33435458. Open Access Manuscript: PDF. Data: 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11

Elnara Muradova, Nishit Patel, Brittney Sell, Bruna B. Bittencourt, Sandra S. Ojeda, Charles H. Adelmann, Ling Cen, Chia-Ho Cheng, Jianjun Shen, Christel M. Davis, Erik A. Ehli, Justin Y. Newberg, Basil Cherpelis, Michael A. Black, Michael B. Mann, Samir Mitragotri, and Kenneth Y. Tsai. Non-invasive assessment of epidermal genomic markers of UV exposure in skin. Journal of Investigative Dermatology 141(1), 124-131.e2. January 4, 2021. PMID: 32553564. Journal Pre-proof available online 15 June 2020. doi:10.1016/j.jid.2020.05.093.

2020

Suman Govindaraju, Michelle Maurin, Justin Y. Newberg, Devin J. Jones, Hubert Lee, Judit E. Markovitz, Michael B. Mann, Michael A. Black, and Karen M. Mann. Insertional mutagenesis defines drivers and evolutionary relationships in pancreatic cancer metastasis. bioRxiv 2020.09.28.317701; bioRxiv. doi: https://doi.org/10.1101/2020.09.28.317701. Open Access Preprint: PDF. Data: 1 | 2

Aziz Aiderus, Ana M. Contreras-Sandoval, Amanda L. Meshey, Justin Y. Newberg, Jerrold M. Ward, Deborah Swing, Neal G. Copeland, Nancy A. Jenkins, Karen M. Mann, and Michael B. Mann. Promoterless Transposon Mutagenesis Drives Solid Cancers via Tumor Suppressor Inactivation. bioRxiv 2020.08.17.254565; bioRxiv. doi: 10.1101/2020.08.17.254565. Open Access Preprint: PDF. Data: 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10

2019

Aziz Aiderus, Justin Y. Newberg, Liliana Guzman-Rojas, Ana M. Contreras-Sandoval, Amanda L. Meshey, Devin J. Jones, Felipe Amaya-Manzanares, Roberto Rangel, Jerrold M. Ward, Song-Choon Lee, Kenneth Hon-Kim Ban, Keith Rogers, Susan M. Rogers, Luxmanan Selvanesan, Leslie A. McNoe, Neal G. Copeland, Nancy A. Jenkins, Kenneth Y. Tsai, Michael A. Black, Karen M. Mann, and Michael B. Mann. Transposon mutagenesis identifies cooperating genetic drivers during keratinocyte transformation and cutaneous squamous cell carcinoma progression. bioRxiv 2019.12.24.887968; bioRxiv. doi: https://doi.org/10.1101/2019.12.24.887968. Open Access Preprint: PDF. Data: 1 | 2 | 3 | 4

2018

Newberg JY, Black MA, Jenkins NA, Copeland NG, Mann KM, and Mann MB. SB Driver Analysis: A Sleeping Beauty cancer driver analysis framework for identifying and prioritizing experimentally actionable oncogenes and tumor suppressors. Nucleic Acids Research. 2018 Sep 19;46(16):e94. Published online before print May 26, 2018. doi:10.1093/nar/gky450. PMID: 29846651; PMCID: PMC6144815. Open Access Manuscript: PDF.

Newberg JY, Mann KM, Mann MB, Jenkins NA, and Copeland NG. SBCDDB: Sleeping Beauty Cancer Driver Database for gene discovery in mouse models of human cancers. Nucleic Acids Research. 2018 Jan 4;46(D1):D1011-D1017. Published online before print October 20, 2017. doi:10.1093/nar/gkx956. PMID: 29059366; PMCID: PMC5753260. Open Access Manuscript: PDF. Published in The 2018 Nucleic Acids Research database issue and the online molecular biology database collection. Available at http://sbcddb.moffitt.org/.

2016

Mann KM, Newberg JY, Black MA, Jones DJ, Amaya-Manzanares F, Guzman-Rojas L, Kodama T, Ward J, Rust AG, van der Weyden L, Chin KY, Waters J, Leung ML, Rogers K, Rogers SM, McNoe L, Selvanesan L, Navin N, Jenkins NA, Copeland NG, and Mann MB. Analyzing tumor heterogeneity and driver genes in single myeloid leukemia cells using SBCapSeq. Nature Biotechnology. 2016, 34(9):962–972. Published online before print August 1, 2016 doi:10.1038/nbt.3637. PMID: 27479497; PMCID: PMC6124494. Press: 1|2|3 | Data: 1|2|3|4 | Analysis: 1|2|3. Open Access Manuscript: PMC PDF.

Mann KM, Guzman-Rojas L, Amaya-Manzanares F, Jones DJ, Newberg JY, Jenkins NA, Copeland NG, and Mann MB*. SBCapSeq Protocol: a method for selective cloning of Sleeping Beauty transposon insertions using liquid capture hybridization and Ion Torrent semiconductor sequencing. Protocol Exchange. 2016. doi:10.1038/protex.2016.053. Open Access Manuscript: PDF-v1. Published online August 3, 2016 at Protocol Exchange. *corresponding author

Rangel R, Lee SC, Ban K, Mann MB, Newberg JY, Guzman-Rojas L, Kodama T, McNoe LA, Selvanesan L, Ward JM, Rust AG, Chin KY, Black MA, Jenkins NA, and Copeland NG. Transposon mutagenesis identifies genes that cooperate with mutant Pten in breast cancer progression. Proc Natl Acad Sci U S A. 2016. pii: 201613859. Published online before print November 14, 2016. doi:10.1073/pnas.1613859113. PMID: 27849608; PMCID: PMC5137755.

2015

Mann MB, Black MA, Jones DJ, Ward J, Chin KY, Newberg JY, Dupuy AJ, Rust AG, Bosenberg MW, McMahon M, Print CG, Copeland NG, and Jenkins NA. Transposon mutagenesis identifies genetic drivers of Braf^V600E melanoma. Nature Genetics. 2015, 47(5):486–495. Published online before print April 13, 2015 doi:10.1038/ng.3275. PMID: 25848750; PMCID: PMC4844184. Press: 1|2|3|4|5 | Data: 1. Open Access Manuscript: PMC PDF.

Goh AM, Xue Y, Leushacke M, Li L, Wong JS, Chiam PC, Rahmat SA, Mann MB, Mann KM, Barker N, Lozano G, Terzian T, and Lane DP. Mutant p53 accumulates in cycling and proliferating cells in the normal tissues of p53 R172H mutant mice. Oncotarget. 2015, 6(20):17968–17980. Published online July 22, 2015 at http://www.impactjournals.com/oncotarget/.

Takeda H, Wei Z, Koso H, Rust AG, Chin KY, Mann MB, Ward JM, Adams DJ, Copeland NG, and Jenkins NA. Transposon mutagenesis identifies genes and evolutionary forces driving gastrointestinal tract tumor progression. Nature Genetics. 2015. 47(2):142–150. Published online before print January 5, 2015. doi:10.1038/ng.3175. PMID: 25559195.

2014

Mann MB, Jenkins NA, Copeland NG, and Mann KM. Sleeping Beauty mutagenesis: exploiting forward genetic screens for cancer gene discovery. Curr. Opin. Genet. Dev.. 2014, Published online before print December 20, 2013, Volume 24C: 16–22. doi:10.1016/j.gde.2013.11.004. PMID: 24657532..

2013

Mann KM, Jenkins NA, Copeland NG, and Mann MB. Transposon Insertional Mutagenesis Models of Cancer. Cold Spring Harb Protoc. 2014 Mar 1; 2014(3):235–247. pii:pdb.top069849. doi: 10.1101/pdb.top069849. PubMed PMID: 24591685. Also appears in Mouse Models of Cancer: A Laboratory Manual; pages 173—185; Edited by Abate-Shen C, Politi K, Olive K, and Chodosh L. Oxford University Press. November 30, 2013. doi:10.1101/pdb.top069849. CSHL Press | Amazon | Barnes & Noble.

Trevarton AJ, Mann MB, Knapp C, Araki H, Wren JD, Stones-Havas S, Black MA, and Print CG. MelanomaDB: a web tool for integrative analysis of melanoma genomic information to identify disease-associated molecular pathways. Front. Oncol. 2013, 3:184. doi: 10.3389/fonc.2013.00184. PMID: 23875173; PMCID: PMC3712543.

Goh AM, Lim CY, Chiam PC, Li L, Mann MB, Mann KM, Menendez S, and Lane DP. Using targeted transgenic reporter mice to study promoter-specific p53 transcriptional activity. PNAS USA. 2012, Published online before print January 17, 2012, 109(5):1685–1690. doi: 10.1073/pnas.1114173109. PMID: 22307631; PMCID: PMC3277193.

Scientific Collaborators

I collaborate extensively with Karen M. Mann, Ph.D. and Michael A. Black, Ph.D. to develop new sequencing technologies and bioinformatics tools aimed at gene discovery using Sleeping Beauty (SB) transposon mutagenesis in mouse models of cancer. Below are a few of our recent collaborative projects:

In work published in Nature Biotechnology, we developed the SBCapSeq method to investigate intratumor heterogeneity, clonal driver gene dynamics, and cooperating driver pathways that control hematopoietic transformation in vivo using a new SB-driven mouse model of myeloid leukemia. Read the paper PMID: 27479497
In work published in Nucleic Acids Research, we developed SB Driver Analysis: A Sleeping Beauty cancer driver analysis framework for identifying and prioritizing experimentally actionable oncogenes and tumor suppressors. Read the paper PMID: 29846651.
In work published in Cancers, we developed a new class of Promoterless SB alleles that can drive solid cancers via tumor suppressor inactivation. Read the paper PMID: 33435458.
In work published in PLoS Genetics, we identified the cooperating genetic drivers during keratinocyte transformation and cutaneous squamous cell carcinoma progression. Read the paper PMID: 34398873.

I recently completed an exciting collaborations with Kenneth Y. Tsai, M.D, Ph.D.. and Martin McMahon, Ph.D.

In work published with Dr. Tsai, in Journal of Investigative Dermatology, we developed a non-invasive surfactants-based method to sample epidermal genomic markers of UV exposure from intact human and mouse skin.
In work published with Dr. McMahon in Cancer Research, we identified the cooperating genetic drivers during malignant progression of BRAFV600E-Driven Lung Tumorigenesis.

Several other exciting collaborative projects will be published in the near future! Check back for updates.

Mann Lab Alumni

Justin Y. Newberg, Ph.D.

Justin was a Applied Research Scientist in the lab from Jan 2017 - Aug 2018. Dr. Newberg is currently a Bioinformatic Scientist within the Cancer Genomics Research group at Foundation Medicine, Inc. in Cambridge, MA.

Ana M. Contreras-Sandoval, Ph.D.

Ana was a Postdoctoral Fellow in the lab from Jan 2018 - Jun 2021. Ana is currently a Pharmaceutical Scientist at Walking Fish Therapeutics, Inc. in San Francisco, CA.

Aziz Aiderus, Ph.D.

Aziz was a Postdoctoral Fellow in the lab from Jan 2018 - Apr 2021. Aziz is currently a Research Fellow in the lab of Prof. Vinay Tergaonkar at the Institute of Molecular and Cell Biology, A*STAR, Singapore.

Amanda L. Meshey

Amanda was first a Research Associate II and then a Graduate Student in the lab from May 2017 - Dec 2022. Amanda is continuing her studies as a graduate student pursuing her Master's degree at USF.

Lab Resources

SBCDDB: Sleeping Beauty Cancer Driver Database

SBCDDB is an integrated SB data portal housing primary tumor models into an analysis and reporting framework, the Sleeping Beauty Cancer Driver DataBase (SBCDDB, http://sbcddb.moffitt.org), which identifies drivers in individual tumors or tumor populations. Newberg et al., Published online before print October 20, 2017. doi:10.1093/nar/gkx956. Take the SBCDDB tutorial (http://sbcddb.moffitt.org/doc/tutorial.html) to start using the SBCDDB for your research.

SB Driver Analysis: A Sleeping Beauty cancer driver analysis framework for identifying and prioritizing experimentally actionable oncogenes and tumor suppressors

The SBCDDB is built using the SB Driver Analysis framework as reported in Newberg et al., Nucleic Acids Research. 2018. Published online before print May 26, 2018 doi:10.1093/nar/gky450. Learn more and download the source code from http://sbcddb.moffitt.org/software/.

Protocols

SBCapSeq Protocols

A method for selective cloning of Sleeping Beauty transposon insertions using liquid capture hybridization and Ion Torrent semiconductor sequencing. Mann et al., Published online 03 Aug 2016 at Protocol Exchange. doi:10.1038/protex.2016.053. We have published several Research Articles using the SBCapSeq method:

In work published in 2016 in Nature Biotechnology, we developed the SBCapSeq method to investigate intratumor heterogeneity, clonal driver gene dynamics, and cooperating driver pathways that control hematopoietic transformation in vivo using a new SB-driven mouse model of myeloid leukemia. Read the paper PMID: 27479497
In work published in 2021 in Cancers, we developed a new class of Promoterless SB alleles that can drive solid cancers via tumor suppressor inactivation. Read the paper PMID: 33435458.
In work published in 2021 in PLoS Genetics, we identified the cooperating genetic drivers during keratinocyte transformation and cutaneous squamous cell carcinoma progression. Read the paper PMID: 34398873.

If you are interested in collaborating on an SBCapSeq project, please contact Dr. Mann.

Soft Agar Assay Protocol

Prepared by Dr. Aziz Aiderus, this protocol describes the soft agar assay recently reported in work published in 2021 in PLoS Genetics, where we identified the cooperating genetic drivers during keratinocyte transformation and cutaneous squamous cell carcinoma progression. Read the paper PMID: 34398873.

Download Soft agar assay protocol.pdf

Primary Cultures from Tumor Tissues Protocol

Prepared by Dr. Aziz Aiderus, this protocol describes the derivation of primary cell cultures from tumor tissues that will be reported in an upcoming manuscript.

Download Primary culture from tumor tissue.pdf

SBsplinkSeq Protocol

A semi-quantiative splinkerette PCR and acoustic shearing method for selective cloning of Sleeping Beauty transposon insertions using multiplex Illumina sequencing. Coming soon!

If you would like to request a copy of the SBsplinkSeq protocol, please contact Dr. Mann.