Tapestation d1000 screening tapes

Manufactured by Agilent Technologies

The TapeStation D1000 screening tapes are a laboratory equipment product designed for sample analysis. The tapes are used to assess the quality and quantity of nucleic acid samples, such as DNA and RNA, prior to further processing or analysis.

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Lab products found in correlation

Qubit hs dna quantification kit, by Thermo Fisher Scientific (2 mentions) Chromium controller, by 10x Genomics (1 mentions) Luna fl, by Logos Biosystems (1 mentions) Chromium next gem single cell 3 v3, by 10x Genomics (1 mentions) Novaseq 6000, by Illumina (1 mentions) Nextseq 500, by Illumina (1 mentions) Dmi1 microscope, by Leica camera (1 mentions) Novaseq 6000 with s4 flow cell, by Illumina (1 mentions)

2 protocols using tapestation d1000 screening tapes

Single-cell RNA-sequencing of Sorted Lung Cells

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Sorted cells from pooled lungs were counted using the Luna-FL automated cell counter (Logos Biosystems), and 18,000–20,000 cells per channel were loaded onto a Chromium controller (10x Genomics), except for GFP⁺ cells, which were loaded completely without counting due to low cell number. scRNA-seq libraries were prepared using Chromium Next GEM Single Cell 3′ v2 (Figs. 1–3 and Supplementary Fig. 1–3) or Chromium Next GEM Single Cell 3′ v3.1 (all other figures) and following the manufacturer’s protocol (10x Genomics). Libraries were analyzed and quantified using TapeStation D1000 screening tapes (Agilent) and Qubit HS DNA quantification kit (Thermo Fisher Scientific) before sequencing with a NextSeq 500 (Illumina) (Figs. 1–3 and Supplementary Figs. 1–3) or NovaSeq 6000 (Illumina) (all other figures). Detailed information for each scRNA-seq run can be found in Supplementary Data 1.

Martins L.R., Sieverling L., Michelhans M., Schiller C., Erkut C., Grünewald T.G., Triana S., Fröhling S., Velten L., Glimm H, & Scholl C. (2024). Single-cell division tracing and transcriptomics reveal cell types and differentiation paths in the regenerating lung. Nature Communications, 15, 2246.

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Single-nucleus RNA-seq Library Preparation

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Single-nucleus suspensions were counted using disposable counting chambers (Bulldog Bio, Portsmouth, NH) on a Leica DMi 1 microscope by a second investigator not involved in tissue processing. A total of 15,000–20,000 nuclei were loaded per channel on a Chromium controller using Chromium Next GEM Single Cell 3ʹ v3.1 reagents (10X Genomics, Pleasanton, CA) placed inside the bio-safety cabinet, and single-nucleus RNA-seq libraries were prepared per the manufacturer’s instructions (increasing the recommended initial cDNA amplification cycles by one to account for lower amounts of RNA from nuclei compared to whole cells). Single-nucleus RNA libraries were analysed and quantified using TapeStation D1000 screening tapes (Agilent, Santa Clara, CA) and Qubit HS DNA quantification kit (Thermo Fisher Scientific). Libraries were pooled equimolarly and quantified using quantitative PCR. Libraries were sequenced on a NovaSeq 6000 with S4 flow cell (Illumina, San Diego, CA) using paired-end, single-index sequencing with 28 cycles for read 1, 8 cycles for i7 index, and 91 cycles for read 2.

Melms J.C., Biermann J., Huang H., Wang Y., Nair A., Tagore S., Katsyv I., Rendeiro A.F., Amin A.D., Schapiro D., Frangieh C.J., Luoma A.M., Filliol A., Fang Y., Ravichandran H., Clausi M.G., Alba G.A., Rogava M., Chen S.W., Ho P., Montoro D.T., Kornberg A.E., Han A.S., Bakhoum M.F., Anandasabapathy N., Suárez-Fariñas M., Bakhoum S.F., Bram Y., Borczuk A., Guo X.V., Lefkowitch J.H., Marboe C., Lagana S.M., Del Portillo A., Zorn E., Markowitz G.S., Schwabe R.F., Schwartz R.E., Elemento O., Saqi A., Hibshoosh H., Que J, & Izar B. (2021). A molecular single-cell lung atlas of lethal COVID-19. Nature, 595(7865), 114-119.

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