Evidence map›Paper›PMID 29673390›Full record

ArticleGenome medicine2018

Enabling multiplexed testing of pooled donor cells through whole-genome sequencing.

Yingleong Chan, Ying Kai Chan, Daniel B Goodman, Xiaoge Guo, Alejandro Chavez, Elaine T Lim, George M Church

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome medicine, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

7 authors.

Yingleong ChanWyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA. ychan@genetics.med.harvard.edu.ORCID 0000-0003-4474-6114
Ying Kai ChanWyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA.
Daniel B GoodmanWyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA.
Xiaoge GuoWyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA.
Alejandro ChavezDepartment of Pathology and Cell Biology, Columbia University College of Physicians and Surgeons, New York, NY, 10032, USA.
Elaine T LimWyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA.
George M ChurchWyss Institute for Biologically Inspired Engineering, Harvard University, Boston, MA, 02115, USA. gchurch@genetics.med.harvard.edu.

Funding

Causal Transcriptional Consequences of Human Genetic VariationP50HG005550 · NHGRI · HARVARD MEDICAL SCHOOL · PI CHURCH, GEORGE M · 2010 to 2014
$19.0M
Center for Genomically Engineered OrgansRM1HG008525 · NHGRI · HARVARD MEDICAL SCHOOL · PI CHURCH, GEORGE M · 2015 to 2019
$10.2M
National Human Genome Research Institute (US) RM1HG008525NHGRI NIH HHS P50 HG005550NHGRI NIH HHS RM1 HG008525Robert Wood Johnson Foundation 74178
6 · The paper itself

Abstract

We describe a method that enables the multiplex screening of a pool of many different donor cell lines. Our method accurately predicts each donor proportion from the pool without requiring the use of unique DNA barcodes as markers of donor identity. Instead, we take advantage of common single nucleotide polymorphisms, whole-genome sequencing, and an algorithm to calculate the proportions from the sequencing data. By testing using simulated and real data, we showed that our method robustly predicts the individual proportions from a mixed-pool of numerous donors, thus enabling the multiplexed testing of diverse donor cells en masse.More information is available at https://pgpresearch.med.harvard.edu/poolseq/.

Indexed as

High-Throughput Nucleotide SequencingTissue DonorsWhole Genome SequencingAlgorithmsB-LymphocytesComputer SimulationGenome, HumanHumansPolymorphism, Single NucleotideSample SizeBarcode free methodExpectation maximization algorithmMultiplexed testingNext-generation sequencingPersonal Genome ProjectSingle nucleotide polymorphisms

Identifiers

PMID29673390
PMCPMC5909281

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.