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| Status |
Public on Jul 04, 2023 |
| Title |
Droplet-based bisulfite sequencing for high-throughput profiling of single-cell DNA methylomes |
| Organisms |
Homo sapiens; Mus musculus |
| Experiment type |
Methylation profiling by high throughput sequencing
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| Summary |
We present a high-throughput and droplet-based bisulfite sequencing library preparation platform. Our protocol allows production of BS library of 2,000-10,000 single cells within 2 days. In addition to validation using mixed cell lines, we also used the technology to profile various cell types in mouse and human brain samples.
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| Overall design |
We used our developed Drop-BS platform to profile single-cell methylomes on one human-mouse mixed sample, four cell line samples, one mouse brain PFC sample, and two human brain PFC samples. In the “Human_mouse_species_mixing”, we mixed equal amounts of GM12878 nuclei and mouse brain nuclei as the input nuclei to prepare a sequencing library using Drop-BS. We used GM12878 cell line, HEK293 cell line, MCF7 cell line separately to prepare three cell line Drop-BS samples. The Drop-BS library of “Three_cell_lines_mixing” was prepared using a mixture of the three with equal portions. We extracted nuclei from mouse, the first human brain PFC tissue, and the second human brain PFC tissue to prepare the “Mouse_brain” library, “Human_brain” library, and “Human_brain2” library respectively.
>>> Submitter states that raw data for the Human_brain sample will be submitted to dbGaP due to patient privacy concerns.<<<
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| Contributor(s) |
Zhang Q, Lu C |
| Citation(s) |
37537185 |
| |
| Submission date |
May 24, 2022 |
| Last update date |
Sep 24, 2023 |
| Contact name |
Chang Lu |
| E-mail(s) |
changlu@vt.edu
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| Phone |
5402318681
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| Organization name |
Virginia Tech
|
| Department |
Chemical Engineering
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| Lab |
Chang Lu
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| Street address |
235 Goodwin Hall, 635 Prices Fork Road, Virginia Tech
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| City |
Blacksburg |
| State/province |
VA |
| ZIP/Postal code |
24061 |
| Country |
USA |
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| Platforms (3) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
| GPL26363 |
HiSeq X Ten (Homo sapiens; Mus musculus) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA841973 |
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