Evidence map›Paper›PMID 31328753›Full record

ArticleLab on a chip2019

Simultaneous RNA purification and size selection using on-chip isotachophoresis with an ionic spacer.

Crystal M Han, David Catoe, Sarah A Munro, Ruba Khnouf, Michael P Snyder, Juan G Santiago, Marc L Salit, Can Cenik

Open access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Lab on a chip, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
0.9field-weighted citation impact, top 25% of its field
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

11 citing papers in PubMed, 18 citations in OpenAlex.

  1. Article
  2. Landscape and regulation of mRNA translation in the earlybioRxiv : the preprint server for biology · 2025
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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

8 authors at 4 institutions in 3 countries.

Crystal M HanDepartment of Mechanical Engineering, San Jose State University, San Jose, CA 95192, USA and Joint Initiative for Metrology in Biology, National Institute of Standards and Technology, Stanford, CA, USA. msalit@stanford.edu.ORCID 0000-0002-6205-1749
David CatoeJoint Initiative for Metrology in Biology, National Institute of Standards and Technology, Stanford, CA, USA. msalit@stanford.edu.
Sarah A MunroJoint Initiative for Metrology in Biology, National Institute of Standards and Technology, Stanford, CA, USA. msalit@stanford.edu and Minnesota Supercomputing Institute, University of Minnesota, MN 55455, USA.
Ruba KhnoufDepartment of Biomedical Engineering, Jordan University of Science and Technology, Irbid, Jordan and Department of Mechanical Engineering, Stanford University, Stanford, CA 94305, USA.
Michael P SnyderDepartment of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA.
Juan G SantiagoDepartment of Mechanical Engineering, Stanford University, Stanford, CA 94305, USA.ORCID 0000-0001-8652-5411
Marc L SalitJoint Initiative for Metrology in Biology, National Institute of Standards and Technology, Stanford, CA, USA. msalit@stanford.edu.
Can CenikDepartment of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA and Department of Molecular Biosciences, University of Texas at Austin, Austin, TX 78705, USA. ccenik@austin.utexas.edu.ORCID 0000-0001-6370-0889
National Institute of Standards and Technology · USStanford Medicine · USJordan University of Science and Technology · JOUniversity of Minnesota · US

Funding

Characterization of recurrent cancer mutations that cause misregulated translationR00CA204522 · NCI · UNIVERSITY OF TEXAS AT AUSTIN · PI CENIK, CAN · 2018 to 2020
$747k
High-throughput sequencer for multi-scale genomic studiesS10OD020141 · OD · STANFORD UNIVERSITY · PI SNYDER, MICHAEL P. · 2015 to 2015
$600k
Characterization of recurrent cancer mutations that cause misregulated translationK99CA204522 · NCI · STANFORD UNIVERSITY · PI CENIK, CAN · 2016 to 2017
$207k
NCI NIH HHS K99 CA204522NCI NIH HHS R00 CA204522NIH HHS S10 OD020141
6 · The paper itself

Abstract

We present an on-chip method for the extraction of RNA within a specific size range from low-abundance samples. We use isotachophoresis (ITP) with an ionic spacer and a sieving matrix to enable size-selection with a high yield of RNA in the target size range. The spacer zone separates two concentrated ITP peaks, the first containing unwanted single nucleotides and the second focusing RNA of the target size range (2-35 nt). Our ITP method excludes >90% of single nucleotides and >65% of longer RNAs (>35 nt). Compared to size selection using gel electrophoresis, ITP-based size-selection yields a 2.2-fold increase in the amount of extracted RNAs within the target size range. We also demonstrate compatibility of the ITP-based size-selection with downstream next generation sequencing. On-chip ITP-prepared samples reveal higher reproducibility of transcript-specific measurements compared to samples size-selected by gel electrophoresis. Our method offers an attractive alternative to conventional sample preparation for sequencing with shorter assay time, higher extraction efficiency and reproducibility. Potential applications of ITP-based size-selection include sequencing-based analyses of small RNAs from low-abundance samples such as rare cell types, samples from fluorescence activated cell sorting (FACS), or limited clinical samples.

Indexed as

High-Throughput Nucleotide SequencingIsotachophoresisCell LineHumansIonsLab-On-A-Chip DevicesParticle SizeRNAIonsRNA

Identifiers

PMID31328753
PMCPMC7272188
OpenAlexW2962789752

What OpenQuestion holds

Textmetadata
LicenceTDM
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.