It also performs sequence assembly and paired clonotype calling on the V(D)J libraries. Additionally, the cell calls provided by the gene expression data are used to improve the cell calls inferred by the V(D)J library.Example dataset
Choose a compute platform Have access to a UNIX command prompt Cell Ranger's vdj pipeline Thecellranger vdjpipeline takes FASTQ files fromcellranger mkfastq,BCL Convert, orbcl2fastqfor V(D)J libraries and performs sequence assembly and paired clonotype calling. It uses the Chromium cellular barco...
High-throughput sequencing (NGS/HTS) now enables the deep sequencing of a lymphoid population with dedicated Rep-Seq methods and softwares. The Vidjil platform contains three components. Vidjil-algo processes high-througput sequencing data to extract V(D)J junctions and gather them into clones. ...
proved to be reliable. The Y-SNP sequencing results of the Control DNA 9948 were consistent, repeatable, and the sensitivity of this Y-SNP detecting kit could be as low as 100 pg. High resolution Y-SNP haplogroups were obtained for all the pedigree samples tested, and the Y-SNP haplogroup...
V(D)J is a highly regulated process that ensures the development of a normal immune system and prevents potential oncogenic events such as translocations, during the sealing step of the CE. Fanconi anemia (FA) is a rare inherited disorder characterized by chromosome breakage, cancer predispo- ...
MOOC - Algorithms for DNA Sequencing, Coursera Frontiers of Biomedical Engineering with W. Mark Saltzman - Yale NOC:Computational Systems Biology - IIT Madras NOC:BioInformatics:Algorithms and Applications - IIT Madras Data Science and AI for Neuroscience Summer School - Caltech Neuroscience Quantum Com...
, 1996). Complete sequencing of the VDR-coding region revealed a different single-nucleotide mutation in each kindred: ATC to AGC for isoleucine-314 to serine in one kindred, CGC to TCG altering arginine-391 to cysteine in the second kindred, and CAG to CCG altering glutamine-259 to pro...
Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing Nature, 487 (2012), pp. 375-379 CrossrefView in ScopusGoogle Scholar 49. T.G. Anthony, S.D. Polley, A.P. Vogler, D.J. Conway Evidence of nonneutral polymorphism in Plasmodium falciparum gamete surface protei...
Whole-genome sequencing was conducted using the Illumina MiSeq platform, with a read length of 60 nucleotides, producing 5,821,469 reads. FastQC35 was used for quality control of the data. Reads originated from Vero E6 host cells were filtered out using Bowtie 236, resulting in 1,070,483...
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