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This area contains material of interest to scientists and cancer specialists.

What is Cancer and How Can We Control It?

In a keynote lecture for the 2013 Adelaide Festival of Ideas, Paul Davies outlines a bold new approach based on tracing cancer’s ancient evolutionary roots and its intriguing links with embryo development. He argues that cancer is not the result of accumulated genetic damage but a deeply embedded and evolutionary-honed “subroutine” in the genetic program of life, which can be repressed by both the host organism and the physician. This talk was introduced hosted by Robyn Williams of the Australian Broadcasting Corporation.  You can access the audio link here:  https://radio.adelaide.edu.au/what-is-cancer-and-how-can-we-control-it/

 

Physics World Special Edition

See what UK physicists are thinking about cancer.

Download the 2013 edition of Physics World.

Click on photo and Enter contact information to download!

 

View Material by Researcher

By Date of Posting to the site:

  • Steve Henikoff’s Lab September 8, 2014 Zentner, GE and Henikoff, S (2014) High-resolution Digital Profiling of the Epigenome, Nature Reviews Genetics, in press.2014 Abstract The widespread adoption of short-read DNA sequencing as a digital epigenomic read-out platform has motivated the development of genome-wide tools that achieve base-pair resolution. New methods for footprinting and affinity purification of nucleosomes, RNA polymerases, chromatin remodelers, and transcription ...
  • William Grady’s Lab September 8, 2014 CpG Island Methylator Phenotype Is Associated With Response to Adjuvant Irinotecan-Based Therapy for Stage III Colon Cancer. Gastroenterology. September 2014. CpG Island Methylator Phenotype Is Associated With Response to Adjuvant Irinotecan-Based Therapy for Stage III Colon Cancer. Differences in DNA Methylation Signatures Reveal Multiple Pathways of Progression from Adenoma to Colorectal Cancer. Gastroenterology, August 2014 Differences in DNA ...
  • Project 2 Team Members March 5, 2013 Project Lead: Stuart Lindsay Stuart Lindsay is Edward and Nadine Carson Professor of Physics and Chemistry and Director of the Center for Single Molecule Biophysics in the Biodesign Institute. His research focuses on biology at the nanoscale. He was a co-founder of Molecular Imaging Corporation. His textbook “Introduction to Nanoscience” has just ...
  • Stuart Lindsay’s Publications March 4, 2013 Publications 2013 Application of catalyst-free click reactions in attaching affinity molecules to tips of atomic force microscopy for detection of protein biomarkers.Langmuir. November 2013 Application of catalyst-free click reactions in attaching affinity molecules to tips of atomic force microscopy for detection of protein biomarkers. Long Lifetime of Hydrogen-bonded DNA Basepairs by Force Spectroscopy. Biophys J. May 2012 Long lifetime ...
  • Paul Davies’s Research Papers January 13, 2012 Targeting cancer’s weaknesses (not its strengths): Therapeutic strategies suggested by the atavistic model, BioEsays, September 2014 Targeting cancer’s weaknesses (not its strengths): Therapeutic strategies suggested by the atavistic model ‘Mitochondria and the evolutionary roots of cancer’ with Alfonso F Davila and Pedro Zamorano, Physical Biology 026008 10, (2013) Mitochondria and the evolutionary roots of cancer PDF Self-Orginization and Entropy ...
  • Paul Davies on NPR January 9, 2012 Listen to Paul Davies on NPR discussing how his study of time travel and search for life in the universe informs his cancer research. Time travel, SETI and cancer research are focus for ASU astrobiologist December 21, 2011 “What do cancer research, time travel theories and the possibilities of life on other planets all have in common? For ...
  • Project 3 Team Members November 7, 2011 Project Lead: Deirdre R. Meldrum Deirdre R. Meldrum is ASU Senior Scientist, Director of the Biosignature Initiative and Director of the Center for Biosignature Discovery Automation (CBDA) in the Biodesign Institute and Professor of Electrical Engineering in the School of Electrical, Computer, and Energy Engineering. She is also Director and Principal Investigator of the NIH ...
  • Project 1 Team Members November 4, 2011 Project Lead: Robert Ros Robert Ros (Principal Investigator) is Associate Professor for Physics at Arizona State University. He joined ASU in 2008 from Bielefeld University as Associate Professor for Physics. He is an experimental biophysicist with expertise in force spectroscopy, and the combination of AFM with confocal microscopy. His research interests in the field of nanobiophysics ...
  • Robert Ros’ Publications March 2, 2011 Publications 2013 A Physical Sciences Network Characterization of Non-tumorigenic and Metastatic Cells. Sci Rep. 2013 A physical sciences network characterization of non-tumorigenic and metastatic cells. Publications 2012 Long Lifetime of Hydrogen-bonded DNA Basepairs by Force Spectroscopy. Biophys J. May 2012 Long lifetime of hydrogen-bonded DNA basepairs by force spectroscopy. Identifying single bases in a DNA oligomer with electron tunnelling, ...
  • Meldrum’s Publications February 17, 2011 Publications 2013 A Physical Sciences Network Characterization of Non-tumorigenic and Metastatic Cells. Sci Rep. 2013 A physical sciences network characterization of non-tumorigenic and metastatic cells. Publications 2012 ‘Isotropic 3D Nuclear Morphometry of normal, fibrocystic and malignant breast epithelial cells reveals novel structural alterations’ with Vivek Nandakumar, Laimonas Kelbauskas, Kathryn Hernandez, Kelly Lintecum, Patti Senechal, Kimberly Bussey, Roger ...
  • Tim Newman’s Publications April 12, 2010 Correlating Cell Behavior with Tissue Topology in Embryonic Epithelia. PLoS One. April 2011 Correlating cell behavior with tissue topology in embryonic epithelia Modeling Cell Rheology with the Subcellular Element Model Modeling cell rheology with the Subcellular Element Model Abstract: Recently, the Subcellular Element Model (SEM) has been introduced, primarily to compute the dynamics of large numbers of three-dimensional deformable cells ...
  • Modeling Multicellular Systems using Sub-Cellular Elements (pdf) April 12, 2010 Author: T. J. Newman Abstract: We introduce a model for describing the dynamics of large numbers of interacting cells. The fundamental dynamical variables in the model are sub-cellular elements, which interact with each other through phenomenological intra- and intercellular potentials. Advantages of the model include: i) adaptive cell-shape dynamics, ii) flexible accommodation of additional intracellular biology, and ...
  • Automated Selection and Placement of Single Cells Using Vision-Based Feedback Control (pdf) April 6, 2010 Automated Selection and Placement of Single Cells Using Vision-Based Feedback Control We present a robotic manipulation system for automated selection and transfer of individual living cells to analysis locations. We begin with a commonly used cell transfer technique using glass capillary micropipettes to aspirate and release living cells suspended in liquid growth media. Using vision-based feedback ...
  • Characterization of deep wet etching of fused silica glass for single cell and optical sensor deposition (pdf) April 6, 2010 Characterization of deep wet etching of fused silica glass for single cell and optical sensor deposition The development of a high-throughput single-cell metabolic rate monitoring system relies onthe use of transparent substrate material for a single cell-trapping platform. The high opticaltransparency, high chemical resistance, improved surface quality and compatibility with thesilicon micromachining process of fused silica ...
  • A New Approach for Measuring Single-Cell Oxygen Consumption Rates (pdf) April 6, 2010 A New Approach for Measuring Single-Cell Oxygen Consumption Rates A novel system that has enabled the measurement of single-cell oxygen consumption rates is presented. The experimental apparatus includes a temperature controlled environmental chamber, an array of microwells etched in glass, and a lid actuator used to seal cells in the microwells. Each microwell contains an oxygen ...
  • Life-on-a-chip (pdf) April 6, 2010 Life-on-a-chip Mechanistic studies of cellular processes are usually carried out with large populations of cells. However, parameters that are measured as averages of large populations can be misleading. For instance, an apparently linear response to a signal could, in fact, reflect an increasing number of cells in the population that have switched from ‘off’ to ‘on’, ...
  • Poster: The work of the Robert Ros team April 3, 2010 Rory Annual Meeting Poster (54×40) (png) Rory Annual Meeting Poster (54×40) (pdf)
  • Poster: “Single Cell Tomography for Early Cancer Detection” Vivek Nandakumar, Laimonas Kelbauskas, Roger Johnson, Deirdre Meldrum March 17, 2010 Vivek Nandakumar, a graduate student working withDeirdre Meldrum, presented a poster of his work to the Arizona Microscopy and Microanalysis Society  (AIMS) annual meeting in March 2010. Poster(Powerpoint): Single Cell Tomography for Early Cancer Detection Poster (JPG):  Single Cell Tomography for Early Cancer Detection
  • Self-Assembled Water-Soluble Nucleic Acid Probe Tiles for Label-Free RNA Hybridization Assays (pdf) February 27, 2010 Self-Assembled Water-Soluble Nucleic Acid Probe Tiles for Label-Free RNA Hybridization Assays The DNA origami method, in which long, single-stranded DNA segments are folded into shapes by short staple segments, was used to create nucleic acid probe tiles that are molecular analogs of macroscopic DNA chips. One hundred trillion probe tiles were fabricated in one step and ...
  • The potential and challenges of nanopore sequencing (pdf) February 27, 2010 The potential and challenges of nanopore sequencing ABSTRACT A nanopore-based device provides single-molecule detection and analytical capabilities that are achieved by electrophoretically driving molecules in solution through a nano-scale pore. The nanopore provides a highly confined space within which single nucleic acid polymers can be analyzed at high throughput by one of a variety of means, and ...
  • Characterization of an antibody scFv that recognizes fibrillar insulin and β-amyloid using atomic force microscopy (pdf) February 27, 2010 Characterization of an antibody scFv that recognizes fibrillar insulin and β-amyloid using atomic force microscopy ABSTRACT Fibrillar amyloid is the hallmark feature of many protein aggregation diseases, such as Alzheimer’s and Parkinson’s diseases. A monoclonal single-chain variable fragment (scFv) targeting insulin fibrils was isolated using phage display technology and an atomic force microscopy (AFM) mica substrate. Specific ...
  • Evolution of a Histone H4-K16 Acetyl-Specific DNA Aptamer (pdf) February 27, 2010 Evolution of a Histone H4-K16 Acetyl-Specific DNA Aptamer
  • Imaging Glycosylation (pdf) February 27, 2010 Imaging Glycosylation
  • Epigenetics & Chromatin (Single-epitope recognition imaging of native chromatin) (pdf) February 27, 2010 Epigenetics & Chromatin (Single-epitope recognition imaging of native chromatin) ABSTRACT Background: Direct visualization of chromatin has the potential to provide important insights into epigenetic processes. In particular, atomic force microscopy (AFM) can visualize single nucleosomes under physiological ionic conditions. However, AFM has mostly been applied to chromatin that has been reconstituted in vitro, and its potential as ...
  • Translocation of Single-Stranded DNA Through Single-Walled Carbon Nanotubes (pdf) February 27, 2010 Translocation of Single-Stranded DNA Through Single-Walled Carbon Nanotubes ABSTRACT We report the fabrication of devices in which one single-walled carbon nanotube spans a barrier between two fluid reservoirs, enabling direct electrical measurement of ion transport through the tube. A fraction of the tubes pass anomalously high ionic currents. Electrophoretic transport of small single-stranded DNA oligomers through these ...
  • Developing DNA tiles for oligonucleotide hybridization assay with higher accuracy and efficiency (pdf) February 27, 2010 Developing DNA tiles for oligonucleotide hybridization assay with higher accuracy and efficiency ABSTRACT We demonstrate the versatility of a DNA tile system for oligonucleotide hybridization assay and explored the detection limit of the probe tiles for DNA targets of varied lengths.
  • Chromatin Stability at Low Concentration Depends on Histone Octamer Saturation Levels (pdf) February 27, 2010 Chromatin Stability at Low Concentration Depends on Histone Octamer Saturation Levels ABSTRACT Studies on the stability of nucleosome core particles as a function of concentration have indicated a lower limit of ~5 ng/mL, below which the complexes start to spontaneously destabilize. Until recently little information was available on the effect of low concentration on chromatin. Using the ...
  • Recognition Imaging of Acetylated Chromatin Using a DNA Aptamer (pdf) February 27, 2010 Recognition Imaging of Acetylated Chromatin Using a DNA Aptamer ABSTRACT Histone acetylation plays an important role in the regulation of gene expression. A DNA aptamer generated by in vitro selection to be highly specific for histone H4 protein acetylated at lysine 16 was used as a recognition element for atomic force microscopy-based recognition imaging of synthetic nucleosomal ...
  • The Myb/SANT domain of the telomere-binding protein TRF2 alters chromatin structure (pdf) February 27, 2010 The Myb/SANT domain of the telomere-binding protein TRF2 alters chromatin structure ABSTRACT Eukaryotic DNA is packaged into chromatin, which regulates genome activities such as telomere maintenance. This study focuses on the interactions of a myb/SANT DNA-binding domain from the telomere-binding protein, TRF2, with reconstituted telomeric nucleosomal array fibers. Biophysical characteristics of the factor-bound nucleosomal arrays were determined ...

By Title (A->Z)

  • A New Approach for Measuring Single-Cell Oxygen Consumption Rates (pdf) A New Approach for Measuring Single-Cell Oxygen Consumption Rates A novel system that has enabled the measurement of single-cell oxygen consumption rates is presented. The experimental apparatus includes a temperature controlled environmental chamber, an array of microwells etched in glass, and a lid actuator used to seal cells in the microwells. Each microwell contains an oxygen ...
  • Automated Selection and Placement of Single Cells Using Vision-Based Feedback Control (pdf) Automated Selection and Placement of Single Cells Using Vision-Based Feedback Control We present a robotic manipulation system for automated selection and transfer of individual living cells to analysis locations. We begin with a commonly used cell transfer technique using glass capillary micropipettes to aspirate and release living cells suspended in liquid growth media. Using vision-based feedback ...
  • Characterization of an antibody scFv that recognizes fibrillar insulin and β-amyloid using atomic force microscopy (pdf) Characterization of an antibody scFv that recognizes fibrillar insulin and β-amyloid using atomic force microscopy ABSTRACT Fibrillar amyloid is the hallmark feature of many protein aggregation diseases, such as Alzheimer’s and Parkinson’s diseases. A monoclonal single-chain variable fragment (scFv) targeting insulin fibrils was isolated using phage display technology and an atomic force microscopy (AFM) mica substrate. Specific ...
  • Characterization of deep wet etching of fused silica glass for single cell and optical sensor deposition (pdf) Characterization of deep wet etching of fused silica glass for single cell and optical sensor deposition The development of a high-throughput single-cell metabolic rate monitoring system relies onthe use of transparent substrate material for a single cell-trapping platform. The high opticaltransparency, high chemical resistance, improved surface quality and compatibility with thesilicon micromachining process of fused silica ...
  • Chromatin Stability at Low Concentration Depends on Histone Octamer Saturation Levels (pdf) Chromatin Stability at Low Concentration Depends on Histone Octamer Saturation Levels ABSTRACT Studies on the stability of nucleosome core particles as a function of concentration have indicated a lower limit of ~5 ng/mL, below which the complexes start to spontaneously destabilize. Until recently little information was available on the effect of low concentration on chromatin. Using the ...
  • Developing DNA tiles for oligonucleotide hybridization assay with higher accuracy and efficiency (pdf) Developing DNA tiles for oligonucleotide hybridization assay with higher accuracy and efficiency ABSTRACT We demonstrate the versatility of a DNA tile system for oligonucleotide hybridization assay and explored the detection limit of the probe tiles for DNA targets of varied lengths.
  • Epigenetics & Chromatin (Single-epitope recognition imaging of native chromatin) (pdf) Epigenetics & Chromatin (Single-epitope recognition imaging of native chromatin) ABSTRACT Background: Direct visualization of chromatin has the potential to provide important insights into epigenetic processes. In particular, atomic force microscopy (AFM) can visualize single nucleosomes under physiological ionic conditions. However, AFM has mostly been applied to chromatin that has been reconstituted in vitro, and its potential as ...
  • Evolution of a Histone H4-K16 Acetyl-Specific DNA Aptamer (pdf) Evolution of a Histone H4-K16 Acetyl-Specific DNA Aptamer
  • Imaging Glycosylation (pdf) Imaging Glycosylation
  • Life-on-a-chip (pdf) Life-on-a-chip Mechanistic studies of cellular processes are usually carried out with large populations of cells. However, parameters that are measured as averages of large populations can be misleading. For instance, an apparently linear response to a signal could, in fact, reflect an increasing number of cells in the population that have switched from ‘off’ to ‘on’, ...
  • Meldrum’s Publications Publications 2013 A Physical Sciences Network Characterization of Non-tumorigenic and Metastatic Cells. Sci Rep. 2013 A physical sciences network characterization of non-tumorigenic and metastatic cells. Publications 2012 ‘Isotropic 3D Nuclear Morphometry of normal, fibrocystic and malignant breast epithelial cells reveals novel structural alterations’ with Vivek Nandakumar, Laimonas Kelbauskas, Kathryn Hernandez, Kelly Lintecum, Patti Senechal, Kimberly Bussey, Roger ...
  • Modeling Multicellular Systems using Sub-Cellular Elements (pdf) Author: T. J. Newman Abstract: We introduce a model for describing the dynamics of large numbers of interacting cells. The fundamental dynamical variables in the model are sub-cellular elements, which interact with each other through phenomenological intra- and intercellular potentials. Advantages of the model include: i) adaptive cell-shape dynamics, ii) flexible accommodation of additional intracellular biology, and ...
  • Paul Davies on NPR Listen to Paul Davies on NPR discussing how his study of time travel and search for life in the universe informs his cancer research. Time travel, SETI and cancer research are focus for ASU astrobiologist December 21, 2011 “What do cancer research, time travel theories and the possibilities of life on other planets all have in common? For ...
  • Paul Davies’s Research Papers Targeting cancer’s weaknesses (not its strengths): Therapeutic strategies suggested by the atavistic model, BioEsays, September 2014 Targeting cancer’s weaknesses (not its strengths): Therapeutic strategies suggested by the atavistic model ‘Mitochondria and the evolutionary roots of cancer’ with Alfonso F Davila and Pedro Zamorano, Physical Biology 026008 10, (2013) Mitochondria and the evolutionary roots of cancer PDF Self-Orginization and Entropy ...
  • Poster: “Single Cell Tomography for Early Cancer Detection” Vivek Nandakumar, Laimonas Kelbauskas, Roger Johnson, Deirdre Meldrum Vivek Nandakumar, a graduate student working withDeirdre Meldrum, presented a poster of his work to the Arizona Microscopy and Microanalysis Society  (AIMS) annual meeting in March 2010. Poster(Powerpoint): Single Cell Tomography for Early Cancer Detection Poster (JPG):  Single Cell Tomography for Early Cancer Detection
  • Poster: The work of the Robert Ros team Rory Annual Meeting Poster (54×40) (png) Rory Annual Meeting Poster (54×40) (pdf)
  • Project 1 Team Members Project Lead: Robert Ros Robert Ros (Principal Investigator) is Associate Professor for Physics at Arizona State University. He joined ASU in 2008 from Bielefeld University as Associate Professor for Physics. He is an experimental biophysicist with expertise in force spectroscopy, and the combination of AFM with confocal microscopy. His research interests in the field of nanobiophysics ...
  • Project 2 Team Members Project Lead: Stuart Lindsay Stuart Lindsay is Edward and Nadine Carson Professor of Physics and Chemistry and Director of the Center for Single Molecule Biophysics in the Biodesign Institute. His research focuses on biology at the nanoscale. He was a co-founder of Molecular Imaging Corporation. His textbook “Introduction to Nanoscience” has just ...
  • Project 3 Team Members Project Lead: Deirdre R. Meldrum Deirdre R. Meldrum is ASU Senior Scientist, Director of the Biosignature Initiative and Director of the Center for Biosignature Discovery Automation (CBDA) in the Biodesign Institute and Professor of Electrical Engineering in the School of Electrical, Computer, and Energy Engineering. She is also Director and Principal Investigator of the NIH ...
  • Recognition Imaging of Acetylated Chromatin Using a DNA Aptamer (pdf) Recognition Imaging of Acetylated Chromatin Using a DNA Aptamer ABSTRACT Histone acetylation plays an important role in the regulation of gene expression. A DNA aptamer generated by in vitro selection to be highly specific for histone H4 protein acetylated at lysine 16 was used as a recognition element for atomic force microscopy-based recognition imaging of synthetic nucleosomal ...
  • Robert Ros’ Publications Publications 2013 A Physical Sciences Network Characterization of Non-tumorigenic and Metastatic Cells. Sci Rep. 2013 A physical sciences network characterization of non-tumorigenic and metastatic cells. Publications 2012 Long Lifetime of Hydrogen-bonded DNA Basepairs by Force Spectroscopy. Biophys J. May 2012 Long lifetime of hydrogen-bonded DNA basepairs by force spectroscopy. Identifying single bases in a DNA oligomer with electron tunnelling, ...
  • Self-Assembled Water-Soluble Nucleic Acid Probe Tiles for Label-Free RNA Hybridization Assays (pdf) Self-Assembled Water-Soluble Nucleic Acid Probe Tiles for Label-Free RNA Hybridization Assays The DNA origami method, in which long, single-stranded DNA segments are folded into shapes by short staple segments, was used to create nucleic acid probe tiles that are molecular analogs of macroscopic DNA chips. One hundred trillion probe tiles were fabricated in one step and ...
  • Steve Henikoff’s Lab Zentner, GE and Henikoff, S (2014) High-resolution Digital Profiling of the Epigenome, Nature Reviews Genetics, in press.2014 Abstract The widespread adoption of short-read DNA sequencing as a digital epigenomic read-out platform has motivated the development of genome-wide tools that achieve base-pair resolution. New methods for footprinting and affinity purification of nucleosomes, RNA polymerases, chromatin remodelers, and transcription ...
  • Stuart Lindsay’s Publications Publications 2013 Application of catalyst-free click reactions in attaching affinity molecules to tips of atomic force microscopy for detection of protein biomarkers.Langmuir. November 2013 Application of catalyst-free click reactions in attaching affinity molecules to tips of atomic force microscopy for detection of protein biomarkers. Long Lifetime of Hydrogen-bonded DNA Basepairs by Force Spectroscopy. Biophys J. May 2012 Long lifetime ...
  • The Myb/SANT domain of the telomere-binding protein TRF2 alters chromatin structure (pdf) The Myb/SANT domain of the telomere-binding protein TRF2 alters chromatin structure ABSTRACT Eukaryotic DNA is packaged into chromatin, which regulates genome activities such as telomere maintenance. This study focuses on the interactions of a myb/SANT DNA-binding domain from the telomere-binding protein, TRF2, with reconstituted telomeric nucleosomal array fibers. Biophysical characteristics of the factor-bound nucleosomal arrays were determined ...
  • The potential and challenges of nanopore sequencing (pdf) The potential and challenges of nanopore sequencing ABSTRACT A nanopore-based device provides single-molecule detection and analytical capabilities that are achieved by electrophoretically driving molecules in solution through a nano-scale pore. The nanopore provides a highly confined space within which single nucleic acid polymers can be analyzed at high throughput by one of a variety of means, and ...
  • Tim Newman’s Publications Correlating Cell Behavior with Tissue Topology in Embryonic Epithelia. PLoS One. April 2011 Correlating cell behavior with tissue topology in embryonic epithelia Modeling Cell Rheology with the Subcellular Element Model Modeling cell rheology with the Subcellular Element Model Abstract: Recently, the Subcellular Element Model (SEM) has been introduced, primarily to compute the dynamics of large numbers of three-dimensional deformable cells ...
  • Translocation of Single-Stranded DNA Through Single-Walled Carbon Nanotubes (pdf) Translocation of Single-Stranded DNA Through Single-Walled Carbon Nanotubes ABSTRACT We report the fabrication of devices in which one single-walled carbon nanotube spans a barrier between two fluid reservoirs, enabling direct electrical measurement of ion transport through the tube. A fraction of the tubes pass anomalously high ionic currents. Electrophoretic transport of small single-stranded DNA oligomers through these ...
  • William Grady’s Lab CpG Island Methylator Phenotype Is Associated With Response to Adjuvant Irinotecan-Based Therapy for Stage III Colon Cancer. Gastroenterology. September 2014. CpG Island Methylator Phenotype Is Associated With Response to Adjuvant Irinotecan-Based Therapy for Stage III Colon Cancer. Differences in DNA Methylation Signatures Reveal Multiple Pathways of Progression from Adenoma to Colorectal Cancer. Gastroenterology, August 2014 Differences in DNA ...