Variable transcriptional adaptation between the laboratory (H37Rv) and clinic...Santhi Devasundaram
The remarkable success of M. tuberculosis as a pathogen is largely due to its ability to
persist within the host for long periods. To develop the effective intervention strategies, understanding the biology
of persistence is highly required. Accumulating evidences showed oxygen deprivation (hypoxia) as a potential
stimulus for triggering the transition of M. tuberculosis to a non-replicating persistent state analogous to
latency in vivo. To date, in vitro hypoxia experimental models used the laboratory adapted isolate H37Rv and
very little is known about the behavior of clinical isolates that are involved during disease outbreaks. Hence,
we compared the transcription profiles of H37Rv and two south Indian clinical isolates (S7 and S10) under hypoxia
to find differences in gene expression pattern.
Variable transcriptional adaptation between the laboratory (H37Rv) and clinic...Santhi Devasundaram
The remarkable success of M. tuberculosis as a pathogen is largely due to its ability to
persist within the host for long periods. To develop the effective intervention strategies, understanding the biology
of persistence is highly required. Accumulating evidences showed oxygen deprivation (hypoxia) as a potential
stimulus for triggering the transition of M. tuberculosis to a non-replicating persistent state analogous to
latency in vivo. To date, in vitro hypoxia experimental models used the laboratory adapted isolate H37Rv and
very little is known about the behavior of clinical isolates that are involved during disease outbreaks. Hence,
we compared the transcription profiles of H37Rv and two south Indian clinical isolates (S7 and S10) under hypoxia
to find differences in gene expression pattern.
Meta-Analysis Identifies Type I Interferon Response as Top Pathway Associated...CSCJournals
Background: Severe Acute Respiratory Syndrome (SARS) corona virus (CoV) infections are a serious public health threat because of their pandemic-causing potential. This work examines pathway signatures derived from mRNA expression data as a measure of differential pathway activity between SARS and mock infection using a meta-analysis approach to predict pathways associated with SARS infection that may have potential as therapeutic targets to preclude or overcome SARS infections. This work applied a GSEA-based, meta-analysis approach for analyzing pathway signatures from gene expression data to determine if such an approach would overcome FET limitations and identify more pathways associated with SARS infections than observed in our previous work using gene signatures...
The influence of reduced oxygen availability on gene expression in laboratory...Santhi Devasundaram
Virtually all dormant
models against tuberculosis tested in animals used laboratory strain H37Rv or Erdman strain. But major
outbreaks of tuberculosis (TB) occur with the strains that have widely different genotypes and phenotypes
compared to H37Rv. In this study, we used a custom oligonucleotide microarray to determine the overall
transcriptional response of laboratory strain (H37Rv) and most prevalent clinical strains (S7 and S10) of
M. tuberculosis from South India to hypoxia.
Proteomics Analysis of Three Different Strains of Mycobacterium tuberculosis...Santhi Devasundaram
The majority of in vitro dormancy experimental models use laboratory-adapted strains H37Rv or Erdman instead of prevalent clinical strains involved during disease outbreaks. Thus, we included the most prevalent clinical strains (S7 and S10) of M. tuberculosis from south India in addition to H37Rv for our in vitro oxygen depletion (hypoxia) experimental model.
Human Genome Project is a worldwide scientific achievement. It was a thirteen-year project initiated in 1990 and completed in 2003. Human Genome Project helped a lot in the identification of diseased genes as DNA is very significant for understanding the diseased gene and their functions. It helped in the identification of disease loci for many diseases and presented their treatment through preventive measures. It identified the gene loci for many diseases like cancer, asthma, high blood pressure, diabetes type 2, obesity, Alzheimer's disease, Down's syndrome, Turner's syndrome, depression and many types of heart diseases including cardiovascular disease and coronary artery disease. This project does not directly treat the diseases but it helps in the identification of disease gene loci and then allows the treatment of disease through its preventive measures before the appearance of symptoms or at the initial stages of the disease through many techniques like gene therapy, pharmacogenomics, and targeted drug therapy. These are the helpful techniques in the diagnoses of the human disease gene locus.
My talk at BASF Science Symposium: sustainable food chain - from field to table, Jun 23-24, 2015, Chicago.
Notes and acknowledgements at http://kamounlab.tumblr.com/post/122151022390/plant-pathology-in-the-post-genomics-era
My talk to the PhD students NRP at the Doctoral Training Programme Summer Conference 2015, The Assembly House, Norwich, Thursday 18th June.
Notes and acknowledgments at http://kamounlab.tumblr.com/post/121748816600/what-are-world-class-science-outputs
Meta-Analysis Identifies Type I Interferon Response as Top Pathway Associated...CSCJournals
Background: Severe Acute Respiratory Syndrome (SARS) corona virus (CoV) infections are a serious public health threat because of their pandemic-causing potential. This work examines pathway signatures derived from mRNA expression data as a measure of differential pathway activity between SARS and mock infection using a meta-analysis approach to predict pathways associated with SARS infection that may have potential as therapeutic targets to preclude or overcome SARS infections. This work applied a GSEA-based, meta-analysis approach for analyzing pathway signatures from gene expression data to determine if such an approach would overcome FET limitations and identify more pathways associated with SARS infections than observed in our previous work using gene signatures...
The influence of reduced oxygen availability on gene expression in laboratory...Santhi Devasundaram
Virtually all dormant
models against tuberculosis tested in animals used laboratory strain H37Rv or Erdman strain. But major
outbreaks of tuberculosis (TB) occur with the strains that have widely different genotypes and phenotypes
compared to H37Rv. In this study, we used a custom oligonucleotide microarray to determine the overall
transcriptional response of laboratory strain (H37Rv) and most prevalent clinical strains (S7 and S10) of
M. tuberculosis from South India to hypoxia.
Proteomics Analysis of Three Different Strains of Mycobacterium tuberculosis...Santhi Devasundaram
The majority of in vitro dormancy experimental models use laboratory-adapted strains H37Rv or Erdman instead of prevalent clinical strains involved during disease outbreaks. Thus, we included the most prevalent clinical strains (S7 and S10) of M. tuberculosis from south India in addition to H37Rv for our in vitro oxygen depletion (hypoxia) experimental model.
Human Genome Project is a worldwide scientific achievement. It was a thirteen-year project initiated in 1990 and completed in 2003. Human Genome Project helped a lot in the identification of diseased genes as DNA is very significant for understanding the diseased gene and their functions. It helped in the identification of disease loci for many diseases and presented their treatment through preventive measures. It identified the gene loci for many diseases like cancer, asthma, high blood pressure, diabetes type 2, obesity, Alzheimer's disease, Down's syndrome, Turner's syndrome, depression and many types of heart diseases including cardiovascular disease and coronary artery disease. This project does not directly treat the diseases but it helps in the identification of disease gene loci and then allows the treatment of disease through its preventive measures before the appearance of symptoms or at the initial stages of the disease through many techniques like gene therapy, pharmacogenomics, and targeted drug therapy. These are the helpful techniques in the diagnoses of the human disease gene locus.
My talk at BASF Science Symposium: sustainable food chain - from field to table, Jun 23-24, 2015, Chicago.
Notes and acknowledgements at http://kamounlab.tumblr.com/post/122151022390/plant-pathology-in-the-post-genomics-era
My talk to the PhD students NRP at the Doctoral Training Programme Summer Conference 2015, The Assembly House, Norwich, Thursday 18th June.
Notes and acknowledgments at http://kamounlab.tumblr.com/post/121748816600/what-are-world-class-science-outputs
1. Sarah Fox-Greer Resume Page 1
RESUME
SARAH FOX-GREER
Ph.D, BSc (HONS)
2356 Fenton Parkway Apt 305
San Diego, 92108
Email: sarahfox4689@gmail.com
Cell: 619 384 4581
PERSONAL INFORMATION
Nationality: British
Date of Birth: 6th February 1983
Permanent resident of the USA
PROFILE
Over a decade of lab experience with particular expertise in pharmacology, inflammation biology,
and immunology.
Diligent, data driven scientist that works well independently and in team settings.
Looking for an industrial scientist position where my strong knowledge base and technical
expertise can be used to advance drug discovery.
Productive and collaborative scientist with a proven track record of publishing data (see attached
publication list).
LABORATORY SKILLS
Isolation and culture of primary human and murine cells (PBMCs, neutrophils, intestinal
organoids). Immune cell, intestinal and lung cell line culture, bacterial culture.
Cell Transfection (siRNA, luciferase reporter assays).
Multi-color flow cytometry, ELISA, Western Blot, confocal imaging, myography,
Electroparamagnetic resonance (EPR), electrochemical detection.
In vivo - intra-tracheal and intra-peritoneal administration of drugs, harvesting of tissues,
preparation of tissues for histology
RESEARCH EXPERIENCE
2011 – Present University of California, San Diego
Post-Doctoral Researcher – Department of Pathology
Consequences of Apoptotic Epithelial Cell Engulfment in the Gastrointestinal Tract.
I am investigating the pathology of IBD with a particular focus on the engulfment of apoptotic
cells of the GI tract by phagocytes and the how this process can influence the progression and
resolution of inflammation. Work in this lab has identified a potential pathway involved in
determining macrophage inflammatory responsiveness during apoptotic cell clearance.
2. Sarah Fox-Greer Resume Page 2
Teaching and Training: I have mentored various undergraduate students and volunteers in
the lab, teaching basic lab skills as well as project planning, troubleshooting and data
presentation. I attended the AAI advanced immunology course in Boston in 2013.
2008 – 2011 University of Edinburgh
Post-Doctoral Researcher – Centre for Inflammation Research
CDK inhibitor Drugs as a Novel Class of Anti-Inflammatory Therapeutics.
Working under the supervision of Professor Rossi, I investigated the pharmacological effects
of CDK inhibitor drugs on granulocyte and macrophage function and the potential of these
drugs as therapeutics for chronic inflammatory diseases.
Teaching: I mentored two undergraduate students during their honours projects and helped
out on assessment panels (student presentations) for the Pharmacology honours course.
2007 (Sep) – 2007 (Dec) University of Edinburgh
Data Collection - Research Assessment Exercise.
I worked alongside Professor Seckl in the run up to the submission of the Research
Assessment Exercise (RAE) results for the University of Edinburgh. I helped gather and mine
the data for official submission. The university gained a five star rating for the medical
departments following this assessment.
2004 – 2007 University of Edinburgh
PhD- ‘ Cation Exchanged Zeolites as Novel Storage Materials of Nitric Oxide;
Therapeutic Potential in Biomedical Applications ‘
Supervisors; Professor Adriano G Rossi and Professor Ian L Megson.
The clinical applications of novel nitric oxide (NO) releasing zeolites (a micro-porous
material) were investigated to examine the potential of these materials as biocompatible
coatings for medical devices. Work during my PhD led to the publication of a number of
papers and due to the nature of the results, provoked interest form the national press.
Industrial Experience- March 2004 – September 2004 Quintiles UK Ltd.
Placement Student – Cardiovascular Pharmacology; Telemetry Dept.
I worked for 6 months in a contract research organization where I gained valuable industrial
experience, working to GLP standards on drug safety studies within a large department. My
honours project involved validating a system to monitor animal activity to complement
telemetry data.
Techniques: Study planning and design, Good laboratory practice skills (GLP), animal
handling and data analysis.
SUMMARY OF QUALIFICATIONS
PhD 2004 - 2008 “Cation Exchanged Zeolites as Novel Storage Materials of
Nitric Oxide; Therapeutic Potential in Biomedical Applications”. University of
Edinburgh.
BSc (HONS) 2000 - 2004 Pharmacology with Industrial Experience. 1st
Class.
University of Edinburgh.
3. Sarah Fox-Greer Resume Page 3
REFEREES
Dr Peter Ernst
University of California, San Diego
Department of Pathology,
9500 Gilman Drive,
San Diego,
92093
Tel: 858.534.2975
Email – pernst@ucsd.edu
Dr Soumita Das
University of California, San Diego
Department of Pathology,
9500 Gilman Drive,
San Diego,
92093
Tel: 858 822 5523
Email – sodas@ucsd.edu
Professor Adriano Rossi
Queen’s Medical Research Institute,
Centre for Inflammation Research,
47 Little France Crescent,
Edinburgh,
EH16 4TJ
Tel: +44 0131 242 6659
Email – A.G.Rossi@ed.ac.uk
4. Sarah Fox-Greer Resume Page 4
PUBLICATIONS
Original Research Articles.
Das S, Sarkar A, Sinha Choudhury S, Owen KA, Castillo V, Fox S, Eckmann L, Elliott MR, Casanova JE, Ernst PB.
ELMO1 has an essential rolein the internalization of Salmonella Typhimurium intoenteric macrophages that
impacts disease outcome CMGH. (2015) accepted for publication in May edition.
Fox S, Ryan, KA, Berger AH, Petro K, Das S, Crowe SE, Ernst PB. The role of C1q in recognition of apoptotic
epithelial cells and inflammatory cytokine production by phagocytes during Helicobacter pylori infection.
(Revisions Submitted).
Fox S, Das S, Den Hartog C, Smith P, Crowe SE, Ernst PB. Activation of AMPK in Macrophages; Insights into
apoptotic cell induced macrophage anergy. (in preparation).
Das S, Sarkar A, Ryan KA, Fox S, Berger AH, Juncadella IJ, Bimczok D, Smythies LE, Harris PR, Ravichandran KS,
Crowe SE, Smith PD, Ernst PB. Brain angiogenesis inhibitor 1 is expressed by gastric phagocytes during
infection withHelicobacter pyloriand mediates the recognition and engulfment of human apoptotic gastric
epithelial cells. FASEB J. (2014) May;28(5):2214-24.
Marwick JA, Dorward DA, Lucas CD, Jones KO, Sheldrake TA, Fox S, Ward C, Murray J, Brittan M, Hirani N, Duffin
R, Dransfield I, Haslett C, Rossi AG. Oxygen Levels Determine the Ability of Glucocorticoids to Influence
Neutrophil Survival in Inflammatory Environments. J Leukoc Biol (2013) Dec 94(6):1285-92
Lucas CD, Dorward DA, Tait MA, Fox S, Marwick JA, Allen KC, Robb CT, Hirani N, Haslett C, Duffin R, Rossi AG.
Downregulation of Mcl-1 has anti-inflammatory pro-resolution effects and enhances bacterial clearance from the lung.
Mucosal Immunol. 2014 Jul;7(4):857-68.
Shaw CA, Taylor EL, Fox S, Megson IL, Rossi AG. Differential Susceptibility to Nitric Oxide-Evoked Apoptosis in
Human Inflammatory Cells. Free Radical Biology and Medicine (2011) Jan 1;50(1):93-101.
Leitch AE, Riley NA, Sheldrake TA, Festa M, Fox S, Duffin R, Haslett C, Rossi AG. The cyclin-dependent kinase
inhibitor R-roscovitine down-regulates Mcl-1 to override pro-inflammatory signalling and drive neutrophil
apoptosis. European Journal of Immunology, (2010) Apr;40(4):1127-38.
Fox, S, Wilkinson, T.S, Wheatley P.S, Morris R.E. Xiao B, Barlow PG, Simpson AJ, Sutherlnd, A, Butler A.R Megson I.L,
Rossi A.G. NO-loaded Zn2+-exchanged zeolite materials: A potential bifunctional anti-bacterial strategy. Acta
Biomaterialia (2010) Apr;6(4):1515-21.
Duffin R, Leitch AE, Sheldrake TA, Hallet JM, Mayer C, Fox S, Alessandri AL, Martin MC, Brady HJ, Teixeira MM,
Dransfield I, Haslett C, Rossi AG. The CDK Inhibitor R-roscovitine, Promotes Eosinophil Apoptosis by Down-
regulation of Mcl-1. FEBS Letters (2009) 583, 15 2540-2546.
Turnbull CM, Marcarino P, Sheldrake TA, Lazzarato L, Cena C, Fruttero R, Gasco A, Fox S, Megson IL, Rossi AG. A
Novel Hybrid Aspirin-NO-Releasing Compound Inhibits TNFalpha Release from LPS-activated Human
Monocytes and Macrophages. Journal of Inflammation (2008) 5:12.
Xiao B, Wheatley P.S, Zhao X, Fletcher A.J, Fox S, Rossi A.G, Megson I.L, Bordiga S, Regil L, Thomas K.M, Morris R.E.
High-capacity hydrogen and nitric oxide adsorption and storage in a metal-organic framework. Journal of the
American Chemical Society (2007) 129(5): 1203-12.
Wheatley P.S, Butler A.R, Crane M.S, Fox S, Xiao B, Rossi A.G, Megson I.L, Morris R.E. NO-Releasing Zeolites and
their Antithrombotic Properties. Journal of the American Chemical Society (2006) 128, 502-509.
Review Articles
Fox, S*, Leitch AE*, Duffin R, Haslett C, Rossi AG. Neutrophil Apoptosis, Relevance to the Innate Immune
Response and Inflammatory Disease. Journal of Innate Immunity, (2010) 2(3):216-27 .
Duffin R, Leitch AE, Fox S, Haslett C, Rossi AG. Targeting Granulocyte Apoptosis: mechanisms, models and
therapies. Immunological Reviews (2010) 236, 26-40.
Book Chapter
Fox S, Rossi AG. Chapter 8 “The Macrophage” Pages 96-107. Fundamentals of Inflammation. Editors Charlie Serhan,
Peter Ward and Derek Gilroy, Medicine and Life Sciences Cambridge University Press, ISBN 9780521887298.
* Joint 1st authorship.