Using EuGeneCiD and EuGeneCiM computational tools for synthetic biology.

Wheaton L Schroeder, Anna S Baber, Rajib Saha

Abstract read

In one paragraph

Article in STAR protocols, 2021. 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.

No citing paper in PubMed yet.

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

3 authors.

Wheaton L SchroederDepartment of Chemical and Biomolecular Engineering, University of Nebraska - Lincoln, Lincoln, NE 68588, USA.

Anna S BaberCenter for Root and Rhizobiome Innovation, University of Nebraska - Lincoln, Lincoln, NE 68588, USA.

Rajib SahaDepartment of Chemical and Biomolecular Engineering, University of Nebraska - Lincoln, Lincoln, NE 68588, USA.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Synthetic biology often relies on the design of genetic circuits, utilizing "bioparts" (modular DNA pieces) to accomplish desired responses to external stimuli. While such designs are usually intuited, detailed here is a computational approach to synthetic biology design and modeling using optimization-based tools named Eukaryotic Genetic Circuit Design and Modeling. These allow for designing and subsequent screening of genetic circuits to increase the chances of

Indexed as

Models, GeneticSoftwareGene Regulatory NetworksHumansSynthetic BiologyBiotechnology and bioengineeringSystems biology

Identifiers

PMID34585158

DOI10.1016/j.xpro.2021.100820

PMCPMC8455485

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.