[{"id":718,"date":"2022-01-05T19:15:57","date_gmt":"2022-01-05T19:15:57","guid":{"rendered":"https:\/\/blogs.vcu.edu\/sndhakal\/?page_id=718"},"modified":"2023-05-17T17:17:39","modified_gmt":"2023-05-17T17:17:39","slug":"funding","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/funding\/","title":{"rendered":"Funding"},"content":{"rendered":"\n
\"CCTR<\/figure><\/div>\n\n\n\n
\"PRAISys<\/figure><\/div>\n\n\n\n
\"Virginia<\/figure>\n\n\n\n
\"\"<\/figure>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-718","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/718","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=718"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/718\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=718"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":184,"date":"2017-05-03T18:09:06","date_gmt":"2017-05-03T18:09:06","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=184"},"modified":"2025-05-20T19:04:09","modified_gmt":"2025-05-20T19:04:09","slug":"announcements","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/announcements\/","title":{"rendered":"Announcements"},"content":{"rendered":"

05\/20\/2025<\/p>\n

Congratulations to Chamika Algama<\/span><\/strong> for receiving the Fall 2025 Initiatives of the Bersoff Scholarship Funds in the College of Humanities and Sciences<\/span><\/strong>!!!<\/p>\n

05\/14\/2024<\/p>\n

Congratulations to Chamika Algama<\/span><\/strong> for receiving the Fall 2024 Gerald and Susan Bass Scholarship<\/span>!!!<\/p>\n

\"\" \"\"<\/p>\n

Congratulations to Roaa Mahmoud<\/span><\/strong> for successfully<\/span> defending her Ph.D. defense<\/span>!!!<\/p>\n

Congratulations to Srishty Sethi<\/span><\/strong> for receiving the Fall 2024 Lidia M. Vallerino<\/strong> Scholarship in Chemistry<\/strong><\/span> !!!<\/p>\n

12\/03\/2023<\/p>\n

Congratulations to Chamika Algama<\/span><\/strong> on successfully defending her Ph.D. proposal<\/span>!!!<\/p>\n

11\/13\/2023<\/p>\n

Congratulations to Kalani Wijesinghe<\/span><\/strong> for successfully defending her Ph.D. defense<\/span> !!!<\/p>\n

06\/01\/2023<\/p>\n

Congratulations to Roaa Mahmoud<\/span><\/a> for receiving the Bass Scholarship<\/strong><\/span> for the 2023-2024 academic year !!!<\/p>\n

Congratulations to Kalani Wijesinghe<\/span><\/a> for receiving the Albert T. Sneden III Scholarship <\/strong><\/span>for\u00a0the 2023-2024 academic year !!!<\/p>\n

05\/04\/2023<\/p>\n

Dr. Dhakal is on Bruker Research Highlight: Optical-Tweezers-Based Mechanical Manipulation Makes Novel Research Possible<\/a><\/span><\/p>\n

05\/06\/2022<\/p>\n

Congratulations to Roaa Mahmoud<\/span><\/a> for receiving the Albert T. Sneden III Scholarship<\/strong><\/span> 2022-2023 academic year !!!<\/p>\n

04\/17\/2022<\/p>\n

Congratulations to Kalani Wijesinghe<\/span><\/a> for receiving the Altria Fellowship<\/strong><\/span> for the 2022-2023 academic year !!!<\/p>\n

Congratulations to Roaa Mahmoud<\/span><\/a> for receiving the Departmental Summer Fellowship<\/span><\/strong> for the 2022 summer!!!<\/p>\n

06\/12\/2021<\/p>\n

Congratulations to Mischa Ellison<\/b><\/span> for being accepted for the MS program at Arizona State University (ASU) funded by the ACS Bridge\u00a0program<\/a><\/span><\/strong><\/span>!!!<\/p>\n

6\/01\/2021<\/p>\n

Congratulations to Anoja Megalathan<\/span><\/strong><\/span> for her postdoctoral position at Yale University<\/strong><\/span>!!!<\/p>\n

5\/28\/2021<\/p>\n

Congratulations to Sydney Pettit<\/strong> <\/span>for receiving the NIH Postbaccalaureate<\/a> fellowship<\/strong><\/span>!!!<\/p>\n

5\/10\/2021<\/p>\n

Congratulations to Anisa Kaur<\/span><\/strong> for her position as a\u00a0 Research Scientist<\/b><\/span> at PPD Richmond<\/a>!!!<\/p>\n

Congratulations to Kalani Wijesinghe<\/span><\/strong> for receiving the \u00a0Lidia M. Vallerino<\/strong> Scholarship in Chemistry<\/strong><\/span> for 2021-2022 academic year !!!<\/p>\n

4\/12\/2021<\/p>\n

Congratulations to Anoja Megalathan<\/span><\/strong> for successfully defending her PhD defense<\/span> !!!<\/p>\n

4\/08\/2021<\/p>\n

Congratulations to Anisa Kaur<\/span><\/strong> for successfully defending her PhD defense<\/span> !!!<\/p>\n

03\/29\/2021<\/p>\n

Congratulations to Dalton Gibbs<\/span><\/strong> for successfully defending his PhD defense<\/span> !!!<\/p>\n

05\/15\/2020<\/p>\n

Congratulations to Dalton Gibbs<\/span><\/strong> for receiving the Distinguished Chemist Fund Award<\/b><\/span> 2020 !!!<\/p>\n

Congratulations to Anisa Kaur<\/span><\/strong> for receiving the \u00a0Lidia M. Vallerino<\/strong> Scholarship in Chemistry<\/strong><\/span> for the 2020-2021 academic year !!!<\/p>\n

Congratulations to Mischa Ellison<\/strong><\/span> for receiving the UROP Fellowship<\/b><\/span>\u00a02020 !!!<\/p>\n

02\/05\/2020<\/p>\n

A manuscript entitled \u2018FRET-Based Aptasensor for the Selective and Sensitive Detection of Lysozyme<\/a><\/em>\u2019 has been accepted for publication in Sensors<\/em><\/strong><\/span>.\u00a0Congratulations to the entire team!!!<\/p>\n

08\/05\/2019<\/p>\n

A manuscript entitled \u2018Single-step FRET-based detection of femtomoles DNA<\/em>\u2019 has been accepted for publication in Sensors<\/em><\/strong><\/span>.\u00a0Congratulations to the entire team!!!<\/p>\n

06\/17\/2019<\/p>\n

A manuscript (collaborative project with Dr. Reiner at VCU Physics) entitled \u2018Single molecule analysis of i-motif within self-assembled DNA duplexes and nanocircles<\/em>\u2019 is accepted for publication in Nucleic Acids Research<\/em><\/strong><\/span>.\u00a0Congratulations to the entire team!!!<\/p>\n

04\/24\/2019<\/p>\n

Congratulations to Kumar Sapkota<\/span><\/span>\u00a0on successfully defending his Ph.D. proposal!!!<\/p>\n

04\/15\/2019<\/p>\n

Congratulations to Benjamin Kass<\/span>\u00a0for receiving the Baker Award<\/b><\/span>\u00a02019 !!!<\/p>\n

Congratulations to Anoja Megalathan<\/span><\/a> for receiving the Distinguished Chemist Fund Award<\/b><\/span><\/span>\u00a02019 !!!<\/p>\n

03\/28\/2019<\/p>\n

Congratulations to Dalton Gibbs<\/span><\/a> for receiving the Altria Fellowship<\/strong><\/span> for the 2019-2020 academic year !!!<\/p>\n

Congratulations to Anisa Kaur<\/a><\/span> for receiving the Altria Fellowship<\/strong><\/span> for the 2019-2020 academic year !!!<\/p>\n

02\/20\/2019<\/p>\n

Anisa\u2019s paper entitled ‘Multiplexed nucleic acid sensing with single-molecule FRET<\/em>\u2019 has been accepted for publication in ACS Sensors<\/em><\/strong>.<\/span> Congratulations Anisa!!!<\/p>\n

11\/27\/2018<\/p>\n

Congratulations to Anisa Kaur<\/span> on successfully defending her Ph.D. proposal!!!<\/p>\n

11\/19\/2018<\/p>\n

Congratulations to A. Megalathan<\/span> on successfully defending her Ph.D. proposal!!!<\/p>\n

11\/16\/2018<\/p>\n

Congratulations to Dalton Gibbs<\/span> on successfully defending his Ph.D. proposal!!!<\/p>\n

05\/16\/2018<\/p>\n

Dalton’s paper on single-molecule fluorescence analysis of the ‘Conformational manipulation of Holliday junction (HJ) DNA by RuvA protein<\/em>‘ is accepted for publication in Biochemistry<\/em><\/span><\/strong>. Congratulations Dalton!!!<\/p>\n

07\/17\/2017<\/p>\n

Dr. Dhakal to present\u00a0as\u00a0a Keynote Speaker<\/a><\/span><\/strong> at the International Conference on Nanomaterials and Nanochemistry 2017<\/a> in Atlanta, Georgia on the topic ‘From Material to Biotechnology Applications of Structural DNA Nanotechnology’.<\/p>\n

05\/05\/2017<\/p>\n

Congratulations to Anisa Kaur<\/a> for receiving the\u00a0Billy Stump\/Ray Ottenbrite Fellowship<\/span><\/a>!!!<\/p>\n","protected":false},"excerpt":{"rendered":"

05\/20\/2025 Congratulations to Chamika Algama for receiving the Fall 2025 Initiatives of the Bersoff Scholarship Funds in the College of Humanities and Sciences!!! 05\/14\/2024 Congratulations to Chamika Algama for receiving the Fall 2024 Gerald and Susan Bass Scholarship!!! Congratulations to Roaa Mahmoud for successfully defending her Ph.D. defense!!! Congratulations to Srishty Sethi for receiving the […]<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":2,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-184","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/184","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=184"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/184\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=184"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":105,"date":"2016-11-15T11:14:10","date_gmt":"2016-11-15T11:14:10","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=105"},"modified":"2025-01-28T03:35:46","modified_gmt":"2025-01-28T03:35:46","slug":"soma-dhakal-ph-d","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/soma-dhakal-ph-d\/","title":{"rendered":"Soma Dhakal"},"content":{"rendered":"

Principal Investigator\u00a0 [Dhakal Soma_Chemistry_2024 CV<\/a>]<\/h2>\n

\"\"<\/p>\n

Hello, I\u2019m Soma Dhakal, the principal Investigator (P.I.). We have a group of diligent, highly dynamic, and interactive people pursuing cutting-edge research in the field of DNA-based sensing, protein-DNA interaction, and DNA nanotechnology. Please browse our website for more information regarding our research and publications and feel free to stop by the lab and office (Temple 4421\/4423) or email me at sndhakal@vcu.edu if you have any questions.<\/p>\n","protected":false},"excerpt":{"rendered":"

Principal Investigator\u00a0 [Dhakal Soma_Chemistry_2024 CV] Hello, I\u2019m Soma Dhakal, the principal Investigator (P.I.). We have a group of diligent, highly dynamic, and interactive people pursuing cutting-edge research in the field of DNA-based sensing, protein-DNA interaction, and DNA nanotechnology. Please browse our website for more information regarding our research and publications and feel free to stop […]<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":6,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-105","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/105","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=105"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/105\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=105"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":83,"date":"2016-11-15T10:18:25","date_gmt":"2016-11-15T10:18:25","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=83"},"modified":"2020-05-20T02:27:50","modified_gmt":"2020-05-20T02:27:50","slug":"lab-pictures","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/lab-pictures\/","title":{"rendered":"Lab Pictures"},"content":{"rendered":"

\"\"<\/p>\n

REU student Shelbie Baird giving her research presentation, July 2019<\/p>\n

\"\"<\/p>\n

Pittcon conference at Philadelphia, PA, March 20, 2019.<\/p>\n

\"\"<\/p>\n

Group picture, Fall 2018.<\/p>\n

\"\"<\/p>\n

Picture taken inside the lab, Summer 2017.<\/p>\n

\"img_0839-1-1024x419\"\"img_0825-1\" \"img_0827-1\" \"img_0830-1\"<\/p>\n

\"\"\"\"<\/p>\n

\"\"\"\"<\/p>\n

\"img_0833-1\" \"img_0838-1\"<\/p>\n

Group lunch, Fall 2016
\n\"\"<\/p>\n

\"\"<\/p>\n

Aug 18, 2017 \u00a0Thanks to Dr. Lekhnath Adhikari (left), Chemistry Professor at Rappahannock community college, Virginia and Dr. Basant Giri (right), founder member of Kathmandu Institute of Applied Sciences (KIAS), for visiting us.<\/p>\n

Group Lunch, Fall 2017<\/p>\n

\"\"<\/p>\n","protected":false},"excerpt":{"rendered":"

REU student Shelbie Baird giving her research presentation, July 2019 Pittcon conference at Philadelphia, PA, March 20, 2019. Group picture, Fall 2018. Picture taken inside the lab, Summer 2017. Group lunch, Fall 2016 Aug 18, 2017 \u00a0Thanks to Dr. Lekhnath Adhikari (left), Chemistry Professor at Rappahannock community college, Virginia and Dr. Basant Giri (right), founder […]<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":3,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-83","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/83","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=83"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/83\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=83"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":11,"date":"2016-09-10T22:51:14","date_gmt":"2016-09-10T22:51:14","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=11"},"modified":"2020-01-05T20:24:35","modified_gmt":"2020-01-05T20:24:35","slug":"in-the-news","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/in-the-news\/","title":{"rendered":"In the News"},"content":{"rendered":"

Dr. Dhakal is quoted in the VCU News<\/em>\u00a0\u2013 High Schoolers Do College-Level Chemistry Research at VCU. For detail click here<\/a>.<\/p>\n

\n

Dr. Dhakal is giving a seminar on ‘Seeing is Believing: Single Molecule Sensing and Protein-DNA Interactions’. For detail\u00a0click here<\/a>.<\/p>\n

\n

New Faculty Brochure by VCU.<\/a><\/p>\n","protected":false},"excerpt":{"rendered":"

Dr. Dhakal is quoted in the VCU News\u00a0\u2013 High Schoolers Do College-Level Chemistry Research at VCU. For detail click here. Dr. Dhakal is giving a seminar on ‘Seeing is Believing: Single Molecule Sensing and Protein-DNA Interactions’. For detail\u00a0click here. New Faculty Brochure by VCU.<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":4,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-11","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/11","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=11"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/11\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=11"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":9,"date":"2016-09-10T22:50:57","date_gmt":"2016-09-10T22:50:57","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=9"},"modified":"2026-01-26T03:01:19","modified_gmt":"2026-01-26T03:01:19","slug":"people","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/people\/","title":{"rendered":"Lab Members"},"content":{"rendered":"

\"\"
\nSoma Dhakal<\/strong>, Ph.D.\u00a0 \u00a0Curriculum Vitae<\/span><\/strong><\/a><\/p>\n

Associate\u00a0 Professor
\nPh.D., Kent State University, 2013
\nPostdoc: University of Michigan (2013-2016)
\nOffice: Temple 4423
\nPhone: (804)\u00a0828-8422
\nEmail: sndhakal@vcu.edu<\/p>\n\n\n\n
Graduate Students<\/span><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n

\"\"<\/p>\n

Dalton Gibbs<\/strong>, Ph.D. Student (Fall 2016 – May 2021). Graduated with a Ph.D. degree.<\/strong><\/span>
\nBS, James Madison University, Harrisonburg, VA
\nResearch Interest: Protein-DNA interactions, Holliday Junction-binding proteins<\/p>\n

\"\"\u00a0<\/b><\/p>\n

Anisa Kaur<\/b>, Ph.D. Student (Fall 2016 – May 2021). Graduated with a Ph.D. degree.<\/strong><\/span>
\nBS, University of Mary Washington, Fredericksburg, VA
\nResearch Interest: Aptasensing, Multiplexed Detection of Biomarkers, DNA Nanotechnology<\/p>\n

\"\"\u00a0<\/b><\/p>\n

Anoja Megalathan<\/b>, Ph.D. Student (Fall 2016 – May 2021). Graduated with a Ph.D. degree.<\/strong><\/span>
\nBS, Institute of Chemistry I<\/strong>\u00a0College of Chemical Sciences,\u00a0Sri Lanka
\nResearch Interest: Nanomedicine, DNA Nanotechnology<\/p>\n

\u00a0<\/b><\/p>\n

\"\"<\/p>\n

Kalani Wijesinghe<\/b>, Ph.D. Student (Fall 2019 – Fall 2023), Graduated with a Ph.D. degree.<\/strong><\/span>
\nBS, College of Chemical Sciences (CCS), Institute of Chemistry Ceylon (IChemC), Sri Lanka
\nResearch Interest: Single-molecule imaging of DNA\u00a0 Nanostructures, DNA Nanotechnology, Biosensing<\/p>\n

\"\"<\/p>\n

Roaa Mahmoud<\/b>, Ph.D. Student (Fall 2019 – Spring 2024), Graduated with a Ph.D. degree.<\/strong><\/span>
\nBS,\u00a0American University of Sharjah
\nResearch Interest: Protein-DNA Interactions, Single-Molecule Biosensing<\/p>\n

\"\"<\/p>\n

Chamika Algama<\/b>, Ph.D. Student (Spring 2022 – Current)
\nBS and M. Phil., Sri Lanka
\nResearch Interest: DNA Nanotechnology, Single-Molecule Microcopy, and Biosensing.<\/p>\n

\"\"<\/p>\n

Srishty Sethi<\/b>, Ph.D. Student (Fall 2022 – Current)
\nBS (Hons) and M.S. in Chemistry, University of Delhi, India
\nResearch Interest: Nucleic Acid Chemistry, Single-Molecule Microcopy, and Biosensing<\/p>\n

\"\"<\/p>\n

Md Monirul Islam<\/b>, Ph.D. Student (Fall 2023 – Current)
\nBS & MS, Jagannath University, Bangladesh
\nResearch Interest: Single-Molecule Microcopy and Biosensing<\/p>\n

\"\"<\/p>\n

Soha Jafari<\/b>, Ph.D. Student (Spring 2025 – Current)
\nMS, University of Tehran
\nResearch Interest: Single-Molecule Microcopy and Biosensing<\/p>\n\n\n\n
Current Undergraduate Students<\/span><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n

Sofia Ferreira
\n<\/b>Research Interest: Analytical Chemistry, Sensing
\nMay 2025 – Aug 2025<\/p>\n\n\n\n
Previous Undergraduate Students<\/span><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n

Mason Matthews
\n<\/b>Research Interest: Analytical Chemistry, Sensing
\nAug 2024 – Spring 2025<\/p>\n

Olivia Byers<\/strong>
\n<\/b>Research Interest: Analytical Chemistry, Sensing
\nJan 2024 – Fall 2025<\/p>\n

Jayasree Allam
\n<\/b>Research Interest: Analytical Chemistry, Sensing
\nAug 2023 – Dec 2023<\/p>\n

Maanya Mavuloori
\n<\/b>Research Interest: Protein-DNA interaction
\nAug 2023 – Dec 2023<\/p>\n

Nana Nyarko
\n<\/b>BS student, Chemistry
\nResearch Interest: Analytical Chemistry, Sensing
\nJan 2023 – May 2023<\/p>\n

Sasha Wang<\/b>
\nBS student, Chemistry
\nResearch Interest: Protein-DNA Interaction, Sensing
\nJan 2023 – May 2023<\/p>\n

Rida Syed
\n<\/b>BS student, Biochemistry and Mathematics
\nResearch Interest: Analytical Chemistry, Sensing
\nAug 2022 – Dec 2022<\/p>\n

Jamil Basir<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Sensing
\nJan 2022 – Dec 2022<\/p>\n

Westley Koon<\/b>
\nREU student<\/strong> from Catawba College<\/span><\/span>
\nResearch Interest: Bio-analytical Chemistry
\nSummer 2022<\/p>\n

Sultana Omar<\/b>
\nACS Project-SEED student<\/strong> from the University of Virginia (UVA)<\/span><\/span>
\nResearch Interest: Biosensing
\nSummer 2022<\/p>\n

Samuel Seaton<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Sensing
\nJan 2022 – May 2022<\/p>\n

Jasmine Barriera<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Sensing
\nJun 2021 – Dec 2021<\/p>\n

Basanta Akriti Poudel<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Biosensing
\nJan 2021 – Dec 2021<\/p>\n

Taahaa Naveed<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Biosensing
\nJan 2021 – May 2021<\/p>\n

Mariam Fadil<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Biosensing
\nAug 2020 – May 2021<\/p>\n

Sydney Pettit<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Biosensing
\nAug 2020 – Dec 2020<\/p>\n

Mischa Ellison<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry, Biosensing
\nNov 2019 – Dec 2020<\/p>\n

Leslie Ranson<\/strong>
\nBS student, Chemistry\/Biochemistry
\nResearch Interest: Analytical Chemistry
\nJan 2019 – May 2020<\/p>\n

Benjamin Kass<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry
\nSept 2018 – May 2020<\/p>\n

Shelbie Baird<\/b>
\nREU student<\/strong> from Stevenson University<\/span><\/span>
\nResearch Interest: Bio-analytical Chemistry
\nSummer 2019<\/p>\n

Caleb Donkoh-Moore<\/strong>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry
\nSept 2018 – Spring 2019<\/p>\n

Paras Jain<\/b>
\nBS student, Chemistry
\nResearch Interest: Analytical Chemistry
\nSummer 2018<\/p>\n

Lusia (Lucy) Mahoney<\/b>
\nBS, Chemical Engineering,\u00a0University of Surabaya, Indonesia
\nResearch Interest: Analytical Chemistry<\/p>\n

Spring 2017 (January, 2017 – May, 2017)<\/p>\n\n\n\n
High School\u00a0Students<\/span><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n

Amelia Seabury<\/strong>
\nSiddharth Venigalla<\/strong>
\nMaggie Walker Governor’s School
\nResearch Outreach Program
\nSpring 2020<\/p>\n

Natalia<\/span> Mangaroo<\/b><\/span>
\nOpen High School, Richmond, VA
\nResearch Interest: Biochemistry
\nBluSky Summer\u00a0Research
\nJune 21- Aug 4, 2017<\/p>\n","protected":false},"excerpt":{"rendered":"

Soma Dhakal, Ph.D.\u00a0 \u00a0Curriculum Vitae Associate\u00a0 Professor Ph.D., Kent State University, 2013 Postdoc: University of Michigan (2013-2016) Office: Temple 4423 Phone: (804)\u00a0828-8422 Email: sndhakal@vcu.edu Graduate Students Dalton Gibbs, Ph.D. Student (Fall 2016 – May 2021). Graduated with a Ph.D. degree. BS, James Madison University, Harrisonburg, VA Research Interest: Protein-DNA interactions, Holliday Junction-binding proteins \u00a0 Anisa […]<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":1,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-9","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/9","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=9"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/9\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=9"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":7,"date":"2016-09-10T22:50:43","date_gmt":"2016-09-10T22:50:43","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=7"},"modified":"2022-02-10T21:08:02","modified_gmt":"2022-02-10T21:08:02","slug":"research","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/research\/","title":{"rendered":"Research"},"content":{"rendered":"

Below is a short description of our research. Visit our Publications<\/a> page for details.<\/strong><\/p>\n

Single-molecule sensing of DNA\/RNA biomarkers<\/strong><\/span><\/p>\n

We are interested in developing DNA-based sensors for multiplexed detection of DNA\/RNA biomarkers. The long-term goal is to implement the sensing strategy for the detection of disease related biomarkers in clinical samples.<\/p>\n

Single-molecule analysis of protein-DNA interactions<\/strong><\/span><\/p>\n

This project includes single-molecule analysis of Holliday junction (HJ)-binding proteins that play critical roles in repairing DNA double-strand breaks (DSBs) in a biological process called homologous recombination (HR). We employ state-of-the-art<\/em>\u00a0single molecule techniques including single-molecule FRET and optical tweezers for these studies.<\/p>\n","protected":false},"excerpt":{"rendered":"

Below is a short description of our research. Visit our Publications page for details. Single-molecule sensing of DNA\/RNA biomarkers We are interested in developing DNA-based sensors for multiplexed detection of DNA\/RNA biomarkers. The long-term goal is to implement the sensing strategy for the detection of disease related biomarkers in clinical samples. Single-molecule analysis of protein-DNA […]<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":3,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-7","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/7","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=7"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/7\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=7"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":5,"date":"2016-09-10T22:49:41","date_gmt":"2016-09-10T22:49:41","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=5"},"modified":"2025-09-05T17:59:55","modified_gmt":"2025-09-05T17:59:55","slug":"publications","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/publications\/","title":{"rendered":"Publications"},"content":{"rendered":"\n

<\/p>\n\n\n\n

2025                                                                  #<\/span> represents Undergrad Students <\/strong><\/p>\n\n\n\n

<\/p>\n\n\n\n

Srishty Sethi, Kalani M. Wijesinghe, Md. Monirul Islam, J. Chuck Harrell, Soma Dhakal, Multiplexed Single-Molecule Detection of Nucleic Acid Biomarkers with a Distance-Tuned Single FRET Pair. Analytical Chemistry<\/em>, 2025, DOI: 10.1021\/acs.analchem.5c01039 (link<\/a>)<\/p>\n\n\n\n

Chamika Harshani Algama, Tracy A. Bruce-Tagoe, Joy Adetunji, Tongye Shen, Michael K. Danquah and Soma Dhakal, Integrating FRET and molecular dynamics simulation for single-molecule aptameric detection of S. aureus IsdA surface protein, Biotechnology Journal<\/em>, https:\/\/doi.org\/10.1002\/biot.70101 (link<\/a>)
<\/p>\n\n\n\n

Artturi Harcher, Connor Ricard, Danielle Connolly, Isabel L Gibbs, Jarve Shaw, Jillian Butler, Julia Perschbacher, Lindsay Replogle, Michaela Eide, Morgan Grissom, Oliver O\u2019Neal, Quan Nguyen, Van Hac Nguyen, Michael Hunnicutt, Roaa Mahmoud, Soma Dhakal, Fluorescence Analysis of Quinine in Commercial Tonic Waters, Methods Protoc.<\/em> 2025, 8<\/em>(1), 5 (link<\/a>)<\/p>\n\n\n\n

Robin Simkhada, Dalton R. Gibbs, Soma Dhakal, Dipak Oli, Rishi Ram Ghimire, Deependra Das Mulmi, Leela Pradhan Joshi, Fabrication of Cu:ZnO thin film sensor for ethanol vapor detection. BIBECHANA<\/em>, 22<\/em>(1), 73\u201379 (link<\/a>)<\/p>\n\n\n\n

2024<\/strong><\/p>\n\n\n\n

\n\n\n\n

<\/p>\n\n\n\n

Caleb J. Dalton, Soma Dhakal & Christopher A. Lemmon, Measuring the biomechanical properties of cell-derived fibronectin fibrils, Biomech. Model. Mechanobiol.<\/em> 2024, 10.1007\/s10237-024-01918-3 (link<\/a>)<\/p>\n\n\n\n

Chamika H. Algama, #<\/span><\/strong><\/sup><\/strong>Jamil Basir, Kalani M. Wijesinghe & Soma Dhakal, Fluorescence-based multimodal DNA logic gates, Nanomaterials<\/em>, 2024, 14, 1185 (link<\/a>)<\/p>\n\n\n\n

Srishty Sethi, Kalani M. Wijesinghe & Soma Dhakal, Single-molecule FRET-based multiplexed detection, Book Chapter, Methods in Molecular Biology (MIMB)<\/em>, 2024, 2744, 183-195 (link<\/a>)<\/p>\n\n\n\n

Aleah N. Edwards, Alexandria N. Iannucci, Jacob VanDenBerg, Tommie Rice, Srishty Sethi, Soma Dhakal & Philip M. Yangyuoru, G-Quadruplex Structure in the ATP-Binding DNA Aptamer Strongly Modulates Ligand Binding Activity, ACS Omega<\/em>, 2024, 12, 14343\u201314350 (Link<\/a>)<\/p>\n\n\n\n

2023<\/strong><\/p>\n\n\n\n

\n\n\n\n

Roaa Mahmoud, Jagan Kalivarathan, Abdul J. Castillo, #<\/span><\/sup><\/span><\/strong><\/span>Sasha Wang, Brian Fuglestad, Mazhar A. Kanak & Soma Dhakal, Aptabinding of tumor necrosis factor-\u03b1 (TNF\u03b1) inhibits its proinflammatory effects and alleviates islet inflammation, Biotechnology Journal<\/em>, 2023, 19, e2300374 (link<\/span><\/a>)<\/span><\/p>\n\n\n\n

Godfred O. Sabbih, Kalani M. Wijesinghe, Chamika Harshani Algama, Soma Dhakal & Michael K. Danquah, Computational generation and characterization of IsdA-binding aptamers, Biotechnology Journal<\/em>, 2023, (link<\/span><\/a>)<\/p>\n\n\n\n

Kalani M. Wijesinghe, Godfred Sabbih, Chamika Harshani Algama, #<\/span><\/sup><\/span><\/strong><\/span>Rida Syed, Michael K. Danquah, & Soma Dhakal, FRET-based single-molecule detection of pathogen-protein IsdA using computationally selected aptamers, <\/span>Anal. Chem.<\/em>, 2023, 95<\/span>, 26<\/span>, 9839\u20139846<\/span> (link<\/a><\/span>)<\/p>\n\n\n\n

\u2020<\/span><\/span>Kaur, A., \u2020<\/span><\/span>Mahmoud, R., Megalathan, A., #<\/span><\/sup><\/span><\/strong><\/span>Pettit, S.  & Dhakal, S. Multiplexed smFRET nucleic acid sensing using DNA nanotweezers,<\/span> Biosensors,<\/i><\/span> 2023<\/span>, 13<\/span>, 119<\/span> (link<\/a><\/span>)  \u2020 <\/span>Co-first author<\/span><\/span><\/p>\n\n\n\n

2022                                                                    <\/strong><\/p>\n\n\n\n

\n\n\n\n

Multiplexed and recyclable single-molecule sensors for quantitative analysis of nucleic-acid biomarkers,  US Patent<\/i><\/strong>,<\/span><\/span> 2022, US11441182B2, Status: Patent Granted (link<\/span><\/strong><\/a>)<\/span><\/span><\/span><\/p>\n\n\n\n

Mahmoud, R. & Dhakal, S. Single-molecule analysis of DNA branch migration under biomimetic environments, J. Phys. Chem. B<\/em>, 2022, 126<\/span>, 38<\/span>, 7252\u20137261 <\/span>(link)<\/span><\/a><\/strong><\/p>\n\n\n\n

Ghimire, M., Gibbs, D., Mahmoud, R., Dhakal, S. & Reiner<\/span>, J. Nanopore analysis as a tool for studying rapid Holliday junction dynamics and analyte binding, Analytical Chemistry, <\/em>2022, 94<\/span>, 28<\/span>, 10027\u2013<\/span>10034<\/span><\/span> (<\/em>link<\/strong><\/span><\/a>)<\/em><\/p>\n\n\n\n

Wijesinghe, K.M., Kanak, M. A., Chuck Harrell, J. & Dhakal, S. Single-molecule sensor for high-confidence detection of miRNA,<\/span> ACS Sensors,<\/i><\/span> 2022<\/span>, 7, 4<\/span>, 1086\u20131094<\/span> (link<\/span><\/a>)<\/strong><\/span><\/p>\n\n\n\n

2021                                                                    <\/strong><\/p>\n\n\n\n

\n\n\n\n

Kaur, A., #<\/span><\/sup><\/span><\/strong><\/span>Ellison, M.  & Dhakal, S. MASH FRET: A simplified approach for single-molecule multiplexing using FRET,<\/span> Anal. Chem.<\/i><\/span> 2021<\/span>, 93<\/span>, 25<\/span>, 8856\u20138863<\/span> (link<\/a><\/span>)<\/p>\n\n\n\n

Gibbs, D.R., Mahmoud, R., Kaur, A. & Dhakal, S. Direct unfolding of RuvA-HJ complex [using optical tweezers] at the single-molecule level<\/span>, Biophysical Journal<\/em>, 2021, 120, 10, 1894-1902 (link<\/span><\/a>)
<\/strong><\/p>\n\n\n\n

\u2020<\/span>Megalathan, A., \u2020<\/span>Wijesinghe, K. M., & Dhakal, S. Single-molecule FRET-based dynamic DNA sensor,<\/span> ACS Sensors,<\/em> 2021,6<\/span>, 3<\/span>, 1367\u20131374 (link<\/span><\/a>) \u2020 Co-first author<\/span><\/span><\/span><\/p>\n\n\n\n

Megalathan, A., Wijesinghe, K. M., #<\/span><\/sup><\/span><\/span>Ranson, L. & Dhakal, S. Single-molecule analysis of nanocircle-embedded i-motif under crowding,<\/span> J. Phys. Chem. B,<\/em> 2021, 125<\/span>, 9<\/span>, 2193\u20132201 (link<\/a><\/span>)<\/span><\/p>\n\n\n\n

2020<\/strong><\/p>\n\n\n\n

\n\n\n\n

Sapkota, K.<\/span> & Dhakal S. FRET-Based Aptasensor for the Selective and Sensitive Detection of Lysozyme, Sensors.<\/em>, 2020, 20, 914 (link<\/span><\/a>)<\/span><\/p>\n\n\n\n

Kaur, A. & Dhakal S. Recent applications of FRET-based multiplexed techniques, Trends Anal. Chem.<\/em>, 2020, 123, 115777 (link<\/span><\/a>)<\/span><\/p>\n\n\n\n

2019<\/strong> <\/span><\/p>\n\n\n\n

\n\n\n\n

Gibbs, D.R. & Dhakal, S. Homologous Recombination under the Single Molecule Fluorescence Microscope, Int. J. Mol. Sci.<\/em>, 2019, 20, 6102 (link<\/a><\/span>)<\/span><\/p>\n\n\n\n

Sapkota, K., Kaur, A., Megalathan, A., #<\/sup><\/span>Donkoh-Moore, C. <\/span>& Dhakal, S. Single-step FRET-based detection of femtomoles DNA, Sensors<\/em>, 2019, 19, 3495 (link<\/a><\/span>)<\/span><\/span><\/p>\n\n\n\n

Megalathan, A., Cox, B.D.,<\/span> <\/span>Wilkerson, P.D., <\/span>Kaur, A., Sapkota K., Reiner, J.E. & Dhakal, S. Single molecule analysis of i-motif within self-assembled DNA duplexes and nanocircles, Nucleic Acids Research<\/em>, 2019, 47, 7199\u20137212<\/span> (link<\/span><\/a>)<\/span><\/span><\/p>\n\n\n\n

Kaur, A., Sapkota K. & Dhakal, S. Multiplexed nucleic acid sensing with single-molecule FRET, ACS Sensors<\/em>, 2019, 4, 623 – 633 (link<\/span><\/a>)<\/span><\/p>\n\n\n\n

2018<\/span><\/strong><\/p>\n\n\n\n

\n\n\n\n

Gibbs, D.R., Kaur, A., Megalathan, A., Sapkota K. & Dhakal, S. Build your own microscope: Step-by-step guide for building a prism-based TIRF microscope, Methods & Protocols<\/em>, 2018, 1, 40 (link<\/span><\/a>)<\/span><\/p>\n\n\n\n

Gibbs, D.R. & Dhakal, S. <\/span>Single-molecule imaging reveals conformational manipulation of Holliday junction DNA by the junction processing protein RuvA. <\/span>Biochemistry<\/em>, 2018, <\/span>57<\/span>, <\/span>3616-3624 (link<\/span><\/a>)<\/span><\/span><\/p>\n\n\n\n

Valero, J., Pal, N., Dhakal, S., Walter N.G., & Famulok, M. A bio-hybrid DNA rotor\/stator nanoengine that moves along predefined tracks. <\/em><\/span>N<\/span>ature Nanotechnology<\/em>, 2018, 13, 496\u2013503 (link<\/span><\/a>) See highlight in ScienceDaily<\/span><\/a><\/p>\n\n\n\n

Before Joining VCU<\/strong><\/span><\/p>\n\n\n\n

\n\n\n\n

Fu, J., Yang, YR, Dhakal, S. Zhao, Z., Liu, M., Zhang, T., Walter N.G., and Yan, H. Assembly of multienzyme complexes on DNA nanostructures. <\/em>Nature Protocols<\/em><\/strong>, 2016, 11, 2243-2273<\/p>\n\n\n\n

Dhakal, S. Adendorff, M., Liu, M., Yan, H., Bathe, M. & Walter N.G. Rational design of DNA-actuated enzyme nanoreactors guided by single molecule analysis. Nanoscale<\/strong><\/em>, 2016, 8, 3125-3137.<\/p>\n\n\n\n

Zhao, Z., Fu, J., Dhakal, S., Johnson-Buck, A., Liu, M., Zhang, T., Woodbury, N., Liu, Y., Walter, N.G. & Yan, H. Nano-caged enzymes with enhanced activity and stability. Nature Commun.<\/em><\/strong>, 2016, 7, 10619. See highlight of this publication in phys.org<\/em><\/span><\/a><\/span>.<\/p>\n\n\n\n

Mallik, L.\u2534<\/sup>, Dhakal, S.\u2534<\/sup>, Nichols, J., Mahoney, J., Dosey, A. M., Jiang, S., Sunahara, R. K., Skiniotis, G. & Walter, N. G. Electron microscopic visualization of protein assemblies on flattened DNA origami. ACS Nano<\/strong>, <\/em>2015,<\/em> 9, 7133-7141.\u2534<\/sup>Co-first author<\/p>\n\n\n\n

Widom. JR., Dhakal, S., Heinicke, LA., Walter, N. G. Single-molecule tools for enzymology, structural biology, systems biology and nanotechnology: an update. Archives of toxicology<\/em><\/strong>, <\/em>2014, 88, 1965-1985.<\/p>\n\n\n\n

Shrestha, P., Xiao, S., Dhakal, S., Tan, Z. & Mao, H. Nascent RNA transcripts facilitate the formation of G-quadruplexes, N<\/em>ucleic acids research<\/em><\/strong>,<\/em> 2014, 42, 7236-7246<\/p>\n\n\n\n

Cui, Y., Koirala, D., Kang, H., Dhakal, S., Yangyuoru, P., Hurley, LH. and Mao, H. Molecular population dynamics of DNA structures in a Bcl-2 promoter sequence is regulated by small-molecules and the transcription factor hnRNP LL. Nucleic Acids Research<\/i><\/b>, 2014, 42, 5755-5764. See highlight of this publication in Chemical & Engineering News<\/em><\/a>.<\/span><\/p>\n\n\n\n

Dhakal, S., Cui, Y., Koirala, D., Ghimire, C., Kushwaha, S., Yu, Z., Yangyuoru, P. M. & Mao, H. Structural and mechanical properties of individual human telomeric G-quadruplexes in molecularly crowded solutions. Nucleic Acids Research<\/em><\/strong>, <\/em>2013, 41, 3915\u20133923.<\/p>\n\n\n\n

Dhakal, S., Lafontaine, JL., Yu, Z., Koirala, D. & Mao, H. Intramolecular folding in human ILPR fragment with three C-rich repeats. PLoS ONE<\/strong>,<\/em> 2012, 7(6): e39271. doi:10.1371\/journal.pone.0039271.<\/p>\n\n\n\n

Dhakal, S., Yu, Z., Konik, R., Cui, Y., Koirala, D. & Mao, H. G-quadruplex and i-motif are mutually exclusive in double stranded ILPR DNA. Biophysical Journal<\/strong>, <\/em>2012, 102, 2575\u20132584.<\/p>\n\n\n\n

Dhakal, S., Mao, H., Rajendran, A., Endo, M., Sugiyama, H., Eds: Spindler L, Spada G. P, Haider S, Silva M. W. D, Fritzsche W. \u201cG-quadruplex nanostructures probed at the single molecular level by force-based methods\u201d in guanine quartets: structure and application. Royal Society of Chemistry Publishing<\/em><\/strong>, 2012, UK.<\/p>\n\n\n\n

Koirala, D., Dhakal, S., Ashbridge, B., Sannohe, Y., Rodriguez, R., Sugiyama, H., Balasubramanian, S. & Mao. H. Single-Molecule Platform for Investigation of G-quadruplex and Ligand Interactions. Nature Chemistry<\/em><\/strong>, <\/em>2011, 3, 782-787. See highlight of this publication in Nature News & Views<\/em><\/a><\/span>.<\/p>\n\n\n\n

Dhakal, S., Yu, Z., Konik, R., Koirala, D. & Mao, H. Formation of human ILPR G-quadruplex in dsDNA. International Review of Biophysical Chemistry<\/em>, 2011, 2, N. 6.<\/p>\n\n\n\n

Dhakal, S., Schonhoft, JD., Koirala, D., Yu, Z. Basu S. & Mao, H. Coexistence of an ILPR i-motif and a partially folded structure with comparable mechanical stability revealed at the single molecular level. J. <\/strong><\/em>Am. Chem. Soc.<\/em><\/strong>,<\/em> 2010, 132, 8991\u20138997.<\/p>\n\n\n\n

Yu, Z., Schonhoft, JD., Dhakal, S., Bajracharya, R., Hegde, R., Basu S. & Mao, H. ILPR G-quadruplexes formed in seconds demonstrate high mechanical stabilities. J. <\/strong><\/em>Am. Chem. Soc.<\/em><\/strong>, 2009, 131, 1876\u20131882.<\/p>\n\n\n\n

Schonhoft, JD., Bajracharya, R., Dhakal, S., Yu, Z., Mao, H. & Basu S. Direct experimental evidence for quadruplex-quadruplex interaction within the human ILPR. Nucleic Acids Research<\/em><\/strong>, 2009,<\/em> 37, 3310\u20133320.<\/p>\n\n\n\n

<\/p>\n","protected":false},"excerpt":{"rendered":"

2025                                                                  # represents Undergrad Students  Srishty Sethi, Kalani M. Wijesinghe, Md. Monirul Islam, J. Chuck Harrell, Soma Dhakal, Multiplexed Single-Molecule Detection of Nucleic […]<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-5","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/5","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=5"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/5\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=5"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}},{"id":339,"date":"2016-08-19T01:32:28","date_gmt":"2016-08-19T01:32:28","guid":{"rendered":"http:\/\/wp.vcu.edu\/sndhakal\/?page_id=2"},"modified":"2020-01-05T20:25:25","modified_gmt":"2020-01-05T20:25:25","slug":"sample-page-2","status":"publish","type":"page","link":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/sample-page-2\/","title":{"rendered":"Useful Links"},"content":{"rendered":"

VCU Chemistry<\/a><\/p>\n

VCU Chemistry Scholarships<\/a><\/p>\n

Search articles in Pubmed<\/a><\/p>\n

Measuring the activity and states of transcription with force and fluorescence<\/a><\/p>\n

UNAFold<\/a>\u00a0and Oligo Analyzer<\/a>, IDT DNA<\/p>\n

Fluorescence Spectra Viewer<\/a>, Thermo Scientific<\/p>\n

Tiamat<\/a> by Prof. Hao Yan, ASU<\/p>\n

CanDo<\/a> by Prof. Mark Bathe, MIT<\/p>\n","protected":false},"excerpt":{"rendered":"

VCU Chemistry VCU Chemistry Scholarships Search articles in Pubmed Measuring the activity and states of transcription with force and fluorescence UNAFold\u00a0and Oligo Analyzer, IDT DNA Fluorescence Spectra Viewer, Thermo Scientific Tiamat by Prof. Hao Yan, ASU CanDo by Prof. Mark Bathe, MIT<\/p>\n","protected":false},"author":935,"featured_media":0,"parent":0,"menu_order":7,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-339","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/339","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/users\/935"}],"replies":[{"embeddable":true,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/comments?post=339"}],"version-history":[{"count":0,"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/pages\/339\/revisions"}],"wp:attachment":[{"href":"https:\/\/blogs.vcu.edu\/sndhakal\/index.php\/wp-json\/wp\/v2\/media?parent=339"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}]