Profile Details

Create Project

★★★★★

☆☆☆☆☆

USD 100 /hr

★★★★★

☆☆☆☆☆

Hire Stephan W.

Brazil

USD 100 /hr

Technology and Biotechnology Consultant

Profile Summary

In the past I have consulted for journal article review, study design and for small biotechnology businesses. During this time I also helped develop LCMS and GC based protocols for cannabis product pesticide screening. I hold a PhD from the University of Bern, with extensive experience in Structural biology, cell biology, molecular simulations, and biochemistry. My main focus during studies was related to adverse drug reactions from common pharmaceutical compounds and their cell based protein or other molecular mediators. Equipment wise, I have utilized a range of machines from FACS, plate readers to traditional LCMS, ITC, CD and scintillation machines. My expertise includes software design for biology using C++, openCL, Python and Java. Along these lines I have experience with drug design and protein design. Additional experience includes NGS and data processing. Currently I work with NGS data related to nanotechnology and medicine, and structural OMICs in an academic setting.

Subject Matter Expertise

• ★ Computational Biology
• ★ Biochemical Assays
• ★ Structural Biology
• ☆ Biopolymers
• ☆ Microbiology
• ☆ Mycology/Fungi
• ☆ Virology
• ☆ Molecular Virology
• ☆ Industrial Microbiology
• ☆ Biochemistry
• ☆ Immunoassay
• ☆ Apoptosis
• ☆ Oxidative Stress & Mitochondrial Function
• ☆ Enzyme Activity Assays
• ☆ Binding Assays
• ☆ Molecular Biology
• ☆ Biomarkers
• ☆ Genetics
• ☆ Microarrays
• ☆ Omics
• ☆ Transcriptomics
• ☆ Proteomics
• ☆ Metabolomics
• ☆ PCR
• ☆ Molecular Cloning
• ☆ Next Generation Sequencing (NGS)
• ☆ ATAC-Seq
• ☆ DNA Sequencing
• ☆ Protein Sequencing
• ☆ Gene Expression Analysis
• ☆ Genome Sequencing
• ☆ Mutagenesis
• ☆ Exome Sequencing
• ☆ Recombinant DNA
• ☆ RNA Synthesis
• ☆ RNA Sequencing
• ☆ DNA/Gene Synthesis
• ☆ Oligonucleotide Synthesis
• ☆ Plasmid DNA
• ☆ DNA Damage & Repair
• ☆ ChIP-Seq
• ☆ Kinases
• ☆ Basic Immunology
• ☆ Adjuvant & Antigen Research
• ☆ Pathogenesis
• ☆ Clinical Microbiology
• ☆ Biomarker Discovery
• ☆ Blotting
• ☆ Immunohistochemistry
• ☆ Historical Research
• ☆ Drug Development
• ☆ Preclinical Research
• ☆ Cancer Research

Services

• Writing

Writing Clinical Trial Documentation, Medical Writing, Non-Medical Regulatory Writing, Technical Writing

Work Experience

Researcher

Institute Polytechnic University São Paulo

March 2025 - February 2027

Research

Albert Einstein Institute-CSBL

September 2023 - December 2024

Postdoctoral/Researcher

Oregon State University

March 2014 - August 2015

Researcher

University of Bern

December 2009 - April 2010

Research Technition

University of California Irvine

March 2002 - March 2003

Technician/Research

University of California

March 1998 - January 2000

Technitian

University of California, Irvine Medical Center

June 1997 - January 1998

Food/water/Soil Testing for pathogenic organisms

Advanced Testing

June 1996 - January 1997

Education

Doctor of Philosophy (Ph.D)

University of Bern

January 2010 - November 2014

MS-Cell Biology

Institute of Cell Biology, University of Bern

January 2007 - December 2008

Graduate Studies

Netherlands Cancer Research Institute

January 1999 - March 2002

BS History

University of California, Irvine

September 1992 - August 1997

BS Biology

University of California, Irvine

September 1992 - August 1997

Certifications

• Basic Analogue Electronics

  California

  August 1992 - Present

Publications

PREPRINT

Stephan L. Watkins, Helder I. Nakaya (2025). Molecular Dynamics Reveal Base Flipping as a Key Mechanism in Tc3a Transposase DNA Recognition .

JOURNAL ARTICLE

Stephan L. Watkins (2023). Current Trends and Changes in Use of Membrane Molecular Dynamics Simulations within Academia and the Pharmaceutical Industry . Membranes.

Stephan L. Watkins (2023). Current Trends and Changes in Use of Membrane Molecular Dynamics Simulations within Academia and the Pharmaceutical Industry . Membranes.

Watkins, S.L.(2023). Current Trends and Changes in Use of Membrane Molecular Dynamics Simulations within Academia and the Pharmaceutical Industry . Membranes. 13. (2).

Pichler WJ, Watkins S, Yerly D(2022). Risk Assessment in Drug Hypersensitivity: Detecting Small Molecules Which Outsmart the Immune System . Frontiers in allergy.

Pichler, W.J., Watkins, S., Yerly, D.(2022). Risk Assessment in Drug Hypersensitivity: Detecting Small Molecules Which Outsmart the Immune System . Frontiers in Allergy. 3.

Pichler WJ, Adam J, Watkins S, Wuillemin N, Yun J, Yerly D(2015). Drug Hypersensitivity: How Drugs Stimulate T Cells via Pharmacological Interaction with Immune Receptors . International archives of allergy and immunology.

Pichler, W.J., Adam, J., Watkins, S., Wuillemin, N., Yun, J., Yerly, D.(2015). Drug Hypersensitivity: How Drugs Stimulate T Cells via Pharmacological Interaction with Immune Receptors . International Archives of Allergy and Immunology. 168. (1). p. 13-24.

Adam J, Wuillemin N, Watkins S, Jamin H, Eriksson KK, Villiger P, Fontana S, Pichler WJ, Yerly D(2014). Abacavir induced T cell reactivity from drug naïve individuals shares features of allo-immune responses . PloS one.

Pichler, W.J., Watkins, S.(2014). Interaction of small molecules with specific immune receptors: The p-i concept and its consequences . Current Immunology Reviews. 10. (1). p. 7-18.

Adam, J., Wuillemin, N., Watkins, S., Jamin, H., Eriksson, K.K., Villiger, P., Fontana, S., Pichler, W.J., Yerly, D.(2014). Abacavir induced T cell reactivity from drug naïve individuals shares features of allo-immune responses . PLoS ONE. 9. (4).

Watkins S, Pichler WJ(2013). Sulfamethoxazole induces a switch mechanism in T cell receptors containing TCRVβ20-1, altering pHLA recognition . PloS one.

Watkins S, Pichler WJ(2013). Activating interactions of sulfanilamides with T cell receptors . Open journal of immunology.

Watkins S, Pichler WJ(2013). T cell receptor variable <i>β</i>20-1 harbors a nucleotide binding pocket in the CDR2<i>β</i> loop . Open journal of immunology.

Watkins, S., Pichler, W.J.(2013). Sulfamethoxazole Induces a Switch Mechanism in T Cell Receptors Containing TCRVβ20-1, Altering pHLA Recognition . PLoS ONE. 8. (10).

Watkins S, van Pouderoyen G, Sixma TK(2004). Structural analysis of the bipartite DNA-binding domain of Tc3 transposase bound to transposon DNA . Nucleic acids research.

Watkins, S., van Pouderoyen, G., Sixma, T.K.(2004). Structural analysis of the bipartite DNA-binding domain of Tc3 transposase bound to transposon DNA . Nucleic Acids Research. 32. (14). p. 4306-4312.

Heffron S, Watkins S, Moeller R, Taban AH, Butowt R, DellaPenna D, Jurnak F(2003). Resolving the space-group ambiguity of crystals of tomato fruit polygalacturonase . Acta crystallographica. Section D, Biological crystallography.

Heffron, S., Watkins, S., Moeller, R., Taban, A.H., Butowt, R., DellaPenna, D., Jurnak, F.(2003). Resolving the space-group ambiguity of crystals of tomato fruit polygalacturonase . Acta Crystallographica - Section D Biological Crystallography. 59. (12). p. 2088-2093.

OTHER

Watkins, S.L.(2021). Molecular dynamics simulations of phytopthora sojae avirulence factor 5, PsAvh5, define membrane binding and inositolphosphate-3’-phosphate interactions and protein mechanics . bioRxiv.