← Search

Table · dataset · 2024

Unbiased Phenotype Detection Using Negative Controls data set

Listed in Edmond

Phenotypic screens using automated microscopy allow comprehensive measurement of the effects of compounds on cells due to the number of markers that can be scored and the richness of the parameters that can be extracted.

Description

The high dimensionality of the data is both a rich source of information and a source of noise that might hide information. Many methods have been proposed to deal with this complex data in order to reduce the complexity and identify interesting phenotypes.

Nevertheless, the majority of laboratories still only use one or two parameters in their analysis, likely due to the computational challenges of carrying out a more sophisticated analysis. Here, we present a novel method that allows discovering new, previously unknown phenotypes based on negative controls only. The method is compared with L1-norm regularization, a standard method to obtain a sparse matrix.

Read the rest (1 more)

The analytical pipeline is implemented in the open-source software KNIME, allowing the implementation of the method in many laboratories, even ones without advanced computing knowledge. As the data set for this paper is large we recommend using a download tool (or browser) that is capable of resuming. PubMed ID 30616488 WebOfScience Link WOS:000459287100004

Links

Where it is published

Catalogue records · 1

Topics

Stated by source
Biology · Biology
Inferred from text
Microscopy 75% · Oncology and carcinogenesis 70%
Provenance · 2 source records, 24 field assertions
SourceKeyLast seenRaw
Edmonddoi:10.17617/3.US5BBT12 d agoJSON v1
Edmonddoi:10.17617/3.US5BBT11 d agoJSON v1
FieldAssertionExtractorEvidence
concepts[field].anzsrc:group:3211enrichment · edmond mpdl mpg detaxonomy-embedding@1.0.0title+keywords+description (70%)
concepts[field].dataverse_subject:biologysource · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0/subjects
concepts[field].dataverse_subject:biologysource · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:astronomymapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:chemistrymapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:computer-science-aimapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:earth-environmentalmapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:economics-financemapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:engineeringmapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:humanitiesmapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:life-sciencesmapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:life-sciencesmapping · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0/subjects
concepts[field].local:field:materials-sciencemapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:medicine-healthmapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:ocean-atmosphericmapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:physicsmapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[field].local:field:social-sciencemapping · edmond mpg deconnector:edmond_mpg_de@1.0.0/subjects
concepts[modality].local:modality:microscopyenrichment · edmond mpdl mpg dekeyword-concept-rules@1.0.0title+description (75%)
created_datesource · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0
descriptionsource · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0/description
publication_datesource · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0
titlesource · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0/name
updated_datesource · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0
version_labelsource · edmond mpdl mpg deconnector:edmond_mpdl_mpg_de@1.0.0