Evidence map›Paper›PMID 26155738›Full record

ArticleACS synthetic biology2015

A Barcoding Strategy Enabling Higher-Throughput Library Screening by Microscopy.

Robert Chen, Harneet S Rishi, Vladimir Potapov, Masaki R Yamada, Vincent J Yeh, Thomas Chow, Celia L Cheung, Austin T Jones, Terry D Johnson, Amy E Keating and 2 more

Open access · greenAbstract readLetter
PubMed Full text at PMC Publisher
In one paragraph

Article in ACS synthetic biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
3.3field-weighted citation impact, top 8% 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

7 citing papers in PubMed, 20 citations in OpenAlex.

  1. Article
  2. Small Fluorogenic Amino Acids for Peptide-Guided Background-Free Imaging.Angewandte Chemie (Weinheim an der Bergstrasse, Germany) · 2023
    Article
  3. Small Fluorogenic Amino Acids for Peptide-Guided Background-Free Imaging.Angewandte Chemie (International ed. in English) · 2023
    Article
  4. Article
  5. Review
  6. Article
  7. Article
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

12 authors at 2 institutions in 1 country.

Robert ChenDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Harneet S RishiDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Vladimir PotapovDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Masaki R YamadaDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Vincent J YehDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Thomas ChowDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Celia L CheungDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Austin T JonesDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Terry D JohnsonDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
Amy E KeatingDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
William C DeLoacheDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
John E DueberDepartment of Bioengineering, §Department of Chemical and Biomolecular Engineering, and ⊥Department of Molecular and Cell Biology, University of California, Berkeley , Berkeley, California 94720, United States.
University of California, Berkeley · USMassachusetts Institute of Technology · US

Funding

Analysis and Design of Coiled Coil PartneringR01GM067681 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI KEATING, AMY E · 2004 to 2012
$2.9M
NIGMS NIH HHS GM067681NIGMS NIH HHS R01 GM067681
6 · The paper itself

Abstract

Dramatic progress has been made in the design and build phases of the design-build-test cycle for engineering cells. However, the test phase usually limits throughput, as many outputs of interest are not amenable to rapid analytical measurements. For example, phenotypes such as motility, morphology, and subcellular localization can be readily measured by microscopy, but analysis of these phenotypes is notoriously slow. To increase throughput, we developed microscopy-readable barcodes (MiCodes) composed of fluorescent proteins targeted to discernible organelles. In this system, a unique barcode can be genetically linked to each library member, making possible the parallel analysis of phenotypes of interest via microscopy. As a first demonstration, we MiCoded a set of synthetic coiled-coil leucine zipper proteins to allow an 8 × 8 matrix to be tested for specific interactions in micrographs consisting of mixed populations of cells. A novel microscopy-readable two-hybrid fluorescence localization assay for probing candidate interactions in the cytosol was also developed using a bait protein targeted to the peroxisome and a prey protein tagged with a fluorescent protein. This work introduces a generalizable, scalable platform for making microscopy amenable to higher-throughput library screening experiments, thereby coupling the power of imaging with the utility of combinatorial search paradigms.

Indexed as

Electronic Data ProcessingHigh-Throughput Screening AssaysMicroscopyProteinsSynthetic BiologyProteinscoiled-coil zipperslibrary screeningmicroscopy barcodessynthetic biology

Identifiers

PMID26155738
PMCPMC4654675
OpenAlexW2466594196

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.