View source for THE J. DAVID GLADSTONE INSTITUTES, A TESTAMENTARY TRUST ESTABLISHED UNDER THE WI (20240336965). SENSITIVE MULTIMODAL PROFILING OF NATIVE DNA BY TRANSPOSASE-MEDIATED SINGLE-MOLECULE SEQUENCING simplified abstract

=SENSITIVE MULTIMODAL PROFILING OF NATIVE DNA BY TRANSPOSASE-MEDIATED SINGLE-MOLECULE SEQUENCING=


==Organization Name==

[[:Category:THE J. DAVID GLADSTONE INSTITUTES, A TESTAMENTARY TRUST ESTABLISHED UNDER THE WI|THE J. DAVID GLADSTONE INSTITUTES, A TESTAMENTARY TRUST ESTABLISHED UNDER THE WI]]


[[Category:THE J. DAVID GLADSTONE INSTITUTES, A TESTAMENTARY TRUST ESTABLISHED UNDER THE WI]]

==Inventor(s)==

[[:Category:Vijay Ramani of San Francisco CA (US)|Vijay Ramani of San Francisco CA (US)]][[Category:Vijay Ramani of San Francisco CA (US)]]

[[:Category:Ke Wu of Martinez CA (US)|Ke Wu of Martinez CA (US)]][[Category:Ke Wu of Martinez CA (US)]]

[[:Category:Hani Goodarzi of San Francisco CA (US)|Hani Goodarzi of San Francisco CA (US)]][[Category:Hani Goodarzi of San Francisco CA (US)]]

[[:Category:Arjun Scott Nanda of Palo Alto CA (US)|Arjun Scott Nanda of Palo Alto CA (US)]][[Category:Arjun Scott Nanda of Palo Alto CA (US)]]

[[:Category:Sivakanthan Kasinathan of Menlo Park CA (US)|Sivakanthan Kasinathan of Menlo Park CA (US)]][[Category:Sivakanthan Kasinathan of Menlo Park CA (US)]]

==SENSITIVE MULTIMODAL PROFILING OF NATIVE DNA BY TRANSPOSASE-MEDIATED SINGLE-MOLECULE SEQUENCING - A simplified explanation of the abstract==


This abstract first appeared for US patent application 20240336965 titled 'SENSITIVE MULTIMODAL PROFILING OF NATIVE DNA BY TRANSPOSASE-MEDIATED SINGLE-MOLECULE SEQUENCING

==Simplified Explanation==
The patent application describes methods for tagmentation in single-molecule sequencing that require significantly less input compared to current protocols. Two methods, smrt-tag and samosa-tag, are introduced for detecting genetic variation, CpG methylation, and chromatin accessibility.

==Key Features and Innovation==
* Implementation of tagmentation for single-molecule sequencing with 90-99% less input.
* Introduction of smrt-tag for genetic variation and CpG methylation detection.
* Introduction of samosa-tag using exogenous adenine methylation for probing chromatin accessibility.
* Resolution of single-fiber chromatin structure, CTCF binding, and DNA methylation in patient-derived prostate cancer xenografts.
* Uncovering metastasis-associated global epigenome disorganization.

==Potential Applications==
The technology can be used in genomics research, epigenetics studies, cancer research, and understanding chromatin structure and function.

==Problems Solved==
* Reduced input requirements for single-molecule sequencing.
* Enhanced detection of genetic variation, CpG methylation, and chromatin accessibility.
* Improved resolution of chromatin structure and epigenetic changes in cancer.

==Benefits==
* Cost-effective sequencing with minimal input.
* Comprehensive analysis of genetic and epigenetic features.
* Better understanding of chromatin structure and its role in disease progression.

==Commercial Applications==
Potential commercial applications include offering sequencing services to research institutions, pharmaceutical companies, and biotechnology firms. The technology can also be used in diagnostic applications for cancer and other diseases.

==Questions about Tagmentation==
===How does tagmentation in single-molecule sequencing differ from traditional sequencing methods?===
Tagmentation combines tagging and fragmentation of DNA in a single step, reducing the input required for sequencing and enabling more efficient detection of genetic and epigenetic features.

===What are the advantages of using samosa-tag for probing chromatin accessibility?===
Samosa-tag introduces exogenous adenine methylation to add a third channel for studying chromatin accessibility, providing insights into chromatin structure and function in various biological contexts.


==Original Abstract Submitted==

methods are provided that implement tagmentation for single-molecule sequencing use 90-99% less input than current protocols: smrt-tag, which allows detection of genetic variation and cpg methylation, and samosa-tag, which uses exogenous adenine methylation to add a third channel for probing chromatin accessibility. samosa-tag of 30,000-50,000 nuclei resolved single-fiber chromatin structure, ctcf binding, and dna methylation in patient-derived prostate cancer xenografts and uncovered metastasis-associated global epigenome disorganization.



[[Category:C12Q1/6869]]
[[Category:C12N15/10]]
[[Category:C12Q1/44]]
[[Category:C12Q1/48]]
[[Category:C12Q1/6806]]
[[Category:CPC_C12Q1/6869]]