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BALDR: a computational pipeline for paired heavy and light chain immunoglobulin reconstruction in single-cell RNA-seq data

Overview of attention for article published in Genome Medicine, March 2018
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About this Attention Score

  • In the top 25% of all research outputs scored by Altmetric
  • High Attention Score compared to outputs of the same age (90th percentile)

Mentioned by

blogs
1 blog
twitter
28 tweeters
patent
1 patent

Citations

dimensions_citation
43 Dimensions

Readers on

mendeley
88 Mendeley
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Title
BALDR: a computational pipeline for paired heavy and light chain immunoglobulin reconstruction in single-cell RNA-seq data
Published in
Genome Medicine, March 2018
DOI 10.1186/s13073-018-0528-3
Pubmed ID
Authors

Amit A. Upadhyay, Robert C. Kauffman, Amber N. Wolabaugh, Alice Cho, Nirav B. Patel, Samantha M. Reiss, Colin Havenar-Daughton, Reem A. Dawoud, Gregory K. Tharp, Iñaki Sanz, Bali Pulendran, Shane Crotty, F. Eun-Hyung Lee, Jens Wrammert, Steven E. Bosinger

Abstract

B cells play a critical role in the immune response by producing antibodies, which display remarkable diversity. Here we describe a bioinformatic pipeline, BALDR (BCR Assignment of Lineage using De novo Reconstruction) that accurately reconstructs the paired heavy and light chain immunoglobulin gene sequences from Illumina single-cell RNA-seq data. BALDR was accurate for clonotype identification in human and rhesus macaque influenza vaccine and simian immunodeficiency virus vaccine induced vaccine-induced plasmablasts and naïve and antigen-specific memory B cells. BALDR enables matching of clonotype identity with single-cell transcriptional information in B cell lineages and will have broad application in the fields of vaccines, human immunodeficiency virus broadly neutralizing antibody development, and cancer.BALDR is available at https://github.com/BosingerLab/BALDR .

Twitter Demographics

The data shown below were collected from the profiles of 28 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 88 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 88 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 21 24%
Student > Ph. D. Student 18 20%
Student > Master 9 10%
Student > Bachelor 4 5%
Professor > Associate Professor 4 5%
Other 11 13%
Unknown 21 24%
Readers by discipline Count As %
Immunology and Microbiology 23 26%
Biochemistry, Genetics and Molecular Biology 18 20%
Agricultural and Biological Sciences 11 13%
Medicine and Dentistry 5 6%
Chemistry 2 2%
Other 5 6%
Unknown 24 27%

Attention Score in Context

This research output has an Altmetric Attention Score of 25. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 16 June 2022.
All research outputs
#1,237,680
of 22,029,478 outputs
Outputs from Genome Medicine
#269
of 1,397 outputs
Outputs of similar age
#29,064
of 300,719 outputs
Outputs of similar age from Genome Medicine
#1
of 1 outputs
Altmetric has tracked 22,029,478 research outputs across all sources so far. Compared to these this one has done particularly well and is in the 94th percentile: it's in the top 10% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 1,397 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 25.5. This one has done well, scoring higher than 80% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 300,719 tracked outputs that were published within six weeks on either side of this one in any source. This one has done particularly well, scoring higher than 90% of its contemporaries.
We're also able to compare this research output to 1 others from the same source and published within six weeks on either side of this one. This one has scored higher than all of them