The document discusses several emerging DNA sequencing technologies and companies, including 10X Genomics' GemCode platform, Complete Genomics' Revolocity technology, and Geniachip. It also mentions companies developing tools to analyze genomic and radiological data like Texrad and Historx. Several studies analyzing tumor heterogeneity and variations are referenced from researchers at Brown University and other institutions.

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5. Allseq.com,. 'Allseq - Genia'. N.p., 2015. Web. 4 Dec. 2015. http://allseq.com/knowledgebank/emerging-technologies/genia
Geniachip.com,. ‘Management Team’. 2015. Web. 4 Dec. 2015. http://www.geniachip.com/about/management/

6. Allseq.com,. 'Allseq - Genia'. N.p., 2015. Web. 4 Dec. 2015. http://allseq.com/knowledgebank/emerging-technologies/genia
Geniachip.com,. ‘Beyond 1000’. 2015. Web. 4 Dec. 2015. http://www.geniachip.com/technology/
Kumar, Shiv et al. 'PEG-Labeled Nucleotides And Nanopore Detection For Single Molecule DNA Sequencing By Synthesis'. Sci. Rep. 2 (2012): n. pag. Web

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GenomeWeb,. 'Raindance, U Chicago Sue 10X Genomics For Patent Infringement'. N.p., 2015. Web. 4 Dec. 2015. https://www.genomeweb.com/business-
news/raindance-u-chicago-sue-10x-genomics-patent-infringement
Bio-itworld.com,. '10X Genomics At AGBT - Bio-IT World'. N.p., 2015. Web. 4 Dec. 2015. http://www.bio-itworld.com/2015/2/25/10x-genomics-agbt.html
10X Genomics,. '10X Genomics: Hudsonalpha And Macrogen To Provide Services On 10X Genomics’ Gemcode™ Platform'. N.p., 2015. Web. 5 Dec. 2015.

9. 10X Genomics,. '10X Genomics: Technology'. N.p., 2015. Web. 4 Dec. 2015. http://10xgenomics.com/technology
Tarbox, Rob. Long Range Applications with Short Read Sequencing Conference Presentation. Festival of Genomics 2015.10X Genomics. Boston. 23 June
2015. Web. 4 Dec 2015.
‘GemCode Platform: Changing the Definition of Sequencing’. 10X Genomics, 10X Genomics 2015. Web. 4 Dec. 2015.

10. Nature Biotechnology 33, 433–435 2015) doi:10.1038/nbt0515-433

11. Complete Genomics,. 'Executive Team - Complete Genomics'. N.p., 2015. Web. 4 Dec. 2015. http://www.completegenomics.com/about-
us/executive-team/
Complete Genomics,. 'Revolocity - Faqs'. N.p., 2015. Web. 4 Dec. 2015. http://www.completegenomics.com/revolocity/faqs/
Allseq.com,. 'Allseq - Complete Genomics'. N.p., 2015. Web. 4 Dec. 2015. http://allseq.com/knowledgebank/sequencing-platforms/complete-
genomics

12. Complete Genomics,. 'Revolocity - Faqs'. N.p., 2015. Web. 4 Dec. 2015. http://www.completegenomics.com/revolocity/faqs/
Allseq.com,. 'Allseq - Complete Genomics'. N.p., 2015. Web. 4 Dec. 2015. http://allseq.com/knowledgebank/sequencing-platforms/complete-
genomics
Krol, Aaron. 'With Revolocity, Complete Genomics Eyes New Markets For DNA Sequencing - Bio-IT World'. Bio-itworld.com. N.p., 2015. Web. 4
Dec. 2015. http://www.bio-itworld.com/2015/10/23/revolocity-complete-genomics-eyes-new-markets-dna-sequencing.html

21. Texrad.com,. 'Texrad | Part Of Feedback Plc, Texrad Research Software Is An Imaging Risk Stratification Tool That Analyses
The Texture Of Clinical Diagnostic Images With The Potential To Assess Prognosis, Risk And Treatment Response'. N.
p., 2015. Web. 4 Dec. 2015.

22. Slideshare.net,. 'Texrad - Texture Analysis Of Radiological Images For Cancer Risk Stra…'. N.p., 2015. Web. 4 Dec. 2015.

23. Slideshare.net,. 'Texrad - Texture Analysis Of Radiological Images For Cancer Risk Stra…'. N.p., 2015. Web. 4 Dec. 2015.

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the Markowetz lab

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36. 10X Genomics,. '10X Genomics: Technology'. N.p., 2015. Web. 4 Dec. 2015. http://10xgenomics.com/technology
10X Genomics,. '10X Genomics: Hudsonalpha And Macrogen To Provide Services On 10X Genomics’ Gemcode™ Platform'. N.p., 2015. Web. 5 Dec. 2015.
Adams, Jerry M and Andres Strasser. "Is Tumor Growth Sustained by Rare Cancer Stem Cells or Dominant Clones?" Cancer Research (2008 ): 4018- 4021. Online.
Allseq.com,. 'Allseq - Complete Genomics'. N.p., 2015. Web. 4 Dec. 2015. http://allseq.com/knowledgebank/sequencing-platforms/complete-genomics
Allseq.com,. 'Allseq - Genia'. N.p., 2015. Web. 4 Dec. 2015. http://allseq.com/knowledgebank/emerging-technologies/genia
Bio-itworld.com,. '10X Genomics At AGBT - Bio-IT World'. N.p., 2015. Web. 4 Dec. 2015. http://www.bio-itworld.com/2015/2/25/10x-genomics-agbt.html
Biospace.com,. 'Historx Inc Announces Issuance Of U S Patent Covering Core AQUAR Technology'. N.p., 2007. Web. 4 Dec. 2015. http://www.biospace.com/News/historx-inc-announces-issuance-of-u-s-patent/56608
Bloomberg.com,. (2011). Novartis to Buy Genoptix for $470 Million in Cash. Retrieved 4 December-2015,from-http://www.bloomberg.com/news/articles/2011-01-24/novartis-agrees-to-acquire-diagnostics-lab-genoptix-for-470-million-cash
Compbio.cs.brown.edu,. (2014). Raphael Lab // Research. Retrieved 4 December 2015, from http://compbio.cs.brown.edu/research/
Complete Genomics,. 'Executive Team - Complete Genomics'. N.p., 2015. Web. 4 Dec. 2015. http://www.completegenomics.com/about-us/executive-team/
Complete Genomics,. 'Revolocity - Faqs'. N.p., 2015. Web. 4 Dec. 2015. http://www.completegenomics.com/revolocity/faqs/
Drmanac, R. et al. 'Human Genome Sequencing Using Unchained Base Reads On Self-Assembling DNA Nanoarrays'. Science 327.5961 (2009): 78-81. Web.
‘GemCode Platform: Changing the Definition of Sequencing’. 10X Genomics, 10X Genomics 2015. Web. 4 Dec. 2015.
Geniachip.com,. ‘Beyond 1000’. 2015. Web. 4 Dec. 2015. http://www.geniachip.com/technology/
Geniachip.com,. ‘Management Team’. 2015. Web. 4 Dec. 2015. http://www.geniachip.com/about/management/
Genoptix. 2015. Web. 4 Dec. 2015. https://www.genoptix.com/

37. GenomeWeb,. 'Raindance, U Chicago Sue 10X Genomics For Patent Infringement'. N.p., 2015. Web. 4 Dec. 2015. https://www.genomeweb.com/business-news/raindance-u-chicago-sue-10x-genomics-patent-infringement
Hajirasouliha, I., Mahmoody, A., & Raphael, B. (2014). A combinatorial approach for analyzing intra-tumor heterogeneity from high-throughput sequencing data. Bioinformatics, 30(12), i78-i86. http://dx.doi.org/10.1093/bioinformatics/btu284
HudsonAlpha Institute for Biotechnology,. 'Hudsonalpha And Macrogen To Provide Services On 10X Genomics’ Gemcode™ Platform - Hudsonalpha Institute For Biotechnology'. N.p., 2015. Web. 5 Dec. 2015.
Karow, Julia. "At AGBT, 10xGenomics Launches GemCode Platform; Shipments Slated for Q2 as Firm BAttles IP Lawsuits." GenomeWeb. 2 March 2015. Online.
Krol, Aaron. 'With Revolocity, Complete Genomics Eyes New Markets For DNA Sequencing - Bio-IT World'. Bio-itworld.com. N.p., 2015. Web. 4 Dec. 2015. http://www.bio-itworld.com/2015/10/23/revolocity-complete-genomics-eyes-new-markets-
dna-sequencing.html
Kumar, Shiv et al. 'PEG-Labeled Nucleotides And Nanopore Detection For Single Molecule DNA Sequencing By Synthesis'. Sci. Rep. 2 (2012): n. pag. Web
Oesper, L., Mahmoody, A., & Raphael, B. (2013). THetA: inferring intra-tumor heterogeneity from high-throughput DNA sequencing data. Genome Biol, 14(7), R80. http://dx.doi.org/10.1186/gb-2013-14-7-r80
Oesper, L., Satas, G., & Raphael, B. (2014). Quantifying tumor heterogeneity in whole-genome and whole-exome sequencing data. Bioinformatics, 30(24), 3532-3540. http://dx.doi.org/10.1093/bioinformatics/btu651
Pollack, Andrew. 'Chinese Company To Acquire DNA Sequencing Firm'. DealBook. N.p., 2012. Web. 4 Dec. 2015. http://dealbook.nytimes.com/2012/09/17/chinese-company-to-acquire-dna-sequencing-firm/?_r=0
Markowetz, F. M. 'Abstract PL05-03: Phylogenetic Quantification Of Intra-Tumor Heterogeneity Predicts Time To Relapse In High-Grade Serous Ovarian Cancer.'. Molecular Cancer Therapeutics12.11_Supplement (2013): PL05-03-PL05-03. Web.
Markowetz, Florian. 'Welcome To The Markowetz Lab'. Markowetz.org. N.p., 2015. Web. 4 Dec. 2015.
Nanostring.com,. 'Digital Genomics For Translational Research And Molecular Diagnostics | Nanostring® Technologies, Inc.'. N.p., 2015. Web. 4 Dec. 2015.
Nicholson, Allen D. et al. 'Automated Quantitative Analysis Of Tissue Microarray Of 443 Patients With Colorectal Adenocarcinoma: Low Expression Of Bcl-2 Predicts Poor Survival'. Journal of the American College of Surgeons 219.5 (2014): 977-
987. Web.

38. Nikolaishvilli-Feinberg, N. et al. 'Development Of DNA Damage Response Signaling Biomarkers Using Automated, Quantitative Image Analysis'. Journal of Histochemistry & Cytochemistry 62.3 (2013): 185-196. Web.
Rieber, Nora et al. 'Coverage Bias And Sensitivity Of Variant Calling For Four Whole-Genome Sequencing Technologies'. PLoS ONE 8.6 (2013): e66621. Web.
Shibata, Darryl. "Mutation and Epigenetic Molecular Clocks in Cancer." Carcinogenesis (2011): 123-128. Print.
Schwarz, Roland F. et al. 'Phylogenetic Quantification Of Intra-Tumour Heterogeneity'. PLoS Comput Biol 10.4 (2014): e1003535. Web.
Slideshare.net,. 'Texrad - Texture Analysis Of Radiological Images For Cancer Risk Stra…'. N.p., 2015. Web. 4 Dec. 2015.
Tarbox, Rob. Long Range Applications with Short Read Sequencing Conference Presentation. Festival of Genomics 2015.10X Genomics. Boston. 23 June 2015. Web. 4 Dec 2015.
Texrad.com,. 'Texrad | Part Of Feedback Plc, Texrad Research Software Is An Imaging Risk Stratification Tool That Analyses The Texture Of Clinical Diagnostic Images With The Potential To Assess Prognosis, Risk And Treatment Response'. N.
p., 2015. Web. 4 Dec. 2015.
Updatefrom.com,. 'Historx - Insights - Announcement'. N.p., 2015. Web. 4 Dec. 2015. http://www.updatefrom.com/historx/2012_q4/announcement.asp
Vandervalk, Benjamin P, et al. "Konnector v2.0: Pseudo-long Reads from Paired-end Sequencing Data." BMC Medical Genomics 8 (2015): http://www.biomedcentral.com/1755-8794/8/S3/S1. online.
WIRE, BUSINESS. 'Hudsonalpha And Macrogen To Provide Services On 10X Genomics’ Gemcode™ Platform | Business Wire'. Businesswire.com. N.p., 2015. Web. 4 Dec. 2015.