Evidence map›Paper›PMID 37786711›Full record

ArticlebioRxiv : the preprint server for biology2023

Model-directed generation of CRISPR-Cas13a guide RNAs designs artificial sequences that improve nucleic acid detection.

Sreekar Mantena, Priya P Pillai, Brittany A Petros, Nicole L Welch, Cameron Myhrvold, Pardis C Sabeti, Hayden C Metsky

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

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed, 10 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors at 2 institutions in 1 country.

Sreekar MantenaBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Priya P PillaiBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Brittany A PetrosBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Nicole L WelchBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Cameron MyhrvoldDepartment of Molecular Biology, Princeton University, Princeton, NJ, USA.
Pardis C SabetiBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Hayden C MetskyBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Broad Institute · USPrinceton University · US

Funding

Viral Genomics: evolution, spread, and host interactionsU19AI110818 · NIAID · BROAD INSTITUTE, INC. · PI BIRREN, BRUCE W., NEAFSEY, DANIEL E · 2014 to 2024
$66.5M
Medical Scientist Training ProgramT32GM007753 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI WALENSKY, LOREN DAVID · 1985 to 2021
$50.0M
Medical Scientist Training ProgramT32GM144273 · NIGMS · HARVARD MEDICAL SCHOOL · PI David Shumway Jones, Jacqueline A. Lees · 2022 to 2026
$14.7M
West African Emerging Infectious Disease Research Center (WA-EIDRC)U01AI151812 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI ANDERSEN, KRISTIAN GRAUGAARD, GARRY, ROBERT F · 2020 to 2024
$13.2M
Computational Methods for Designing Optimal Genomics-guided Viral DiagnosticsK01AI163498 · NIAID · BROAD INSTITUTE, INC. · PI METSKY, HAYDEN C · 2021 to 2022
$232k
NIAID NIH HHS K01 AI163498NIAID NIH HHS U01 AI151812NIAID NIH HHS U19 AI110818NIGMS NIH HHS T32 GM007753NIGMS NIH HHS T32 GM144273
6 · The paper itself

Abstract

Generating maximally-fit biological sequences has the potential to transform CRISPR guide RNA design as it has other areas of biomedicine. Here, we introduce model-directed exploration algorithms (MEAs) for designing maximally-fit, artificial CRISPR-Cas13a guides-with multiple mismatches to any natural sequence-that are tailored for desired properties around nucleic acid diagnostics. We find that MEA-designed guides offer more sensitive detection of diverse pathogens and discrimination of pathogen variants compared to guides derived directly from natural sequences, and illuminate interpretable design principles that broaden Cas13a targeting.

Identifiers

PMID37786711
PMCPMC10541601
OpenAlexW4386934102

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.