Evidence map›Paper›PMID 33361089›Full record

ReviewDevelopment (Cambridge, England)2020

A primer for generating and using transcriptome data and gene sets.

Chad Cockrum, Kiyomi R Kaneshiro, Andreas Rechtsteiner, Tomoko M Tabuchi, Susan Strome

Abstract readReview
In one paragraph

Review in Development (Cambridge, England), 2020. 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
–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

7 citing papers in PubMed.

  1. Article
  2. Article
  3. Melatonin Receptor Expression in Primary Uveal Melanoma.International journal of molecular sciences · 2024
    Article
  4. Article
  5. CD56Frontiers in immunology · 2024
    Article
  6. Bulk and Single-Cell RNA-Seq Analyses for Studies of Spermatogonia.Methods in molecular biology (Clifton, N.J.) · 2023
    Article
  7. Identification and Cloning of a CC-NBS-NBS-LRR Gene as a Candidate ofInternational journal of molecular sciences · 2021
    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

5 authors.

Chad CockrumDepartment of Molecular, Cell, and Developmental Biology, University of California Santa Cruz, 1156 High Street, Santa Cruz, CA 95064, USA.ORCID 0000-0002-4080-9184
Kiyomi R KaneshiroDepartment of Molecular, Cell, and Developmental Biology, University of California Santa Cruz, 1156 High Street, Santa Cruz, CA 95064, USA.ORCID 0000-0003-0636-7455
Andreas RechtsteinerDepartment of Molecular, Cell, and Developmental Biology, University of California Santa Cruz, 1156 High Street, Santa Cruz, CA 95064, USA.ORCID 0000-0001-6031-1087
Tomoko M TabuchiDepartment of Molecular, Cell, and Developmental Biology, University of California Santa Cruz, 1156 High Street, Santa Cruz, CA 95064, USA.ORCID 0000-0002-6528-8581
Susan StromeDepartment of Molecular, Cell, and Developmental Biology, University of California Santa Cruz, 1156 High Street, Santa Cruz, CA 95064, USA sstrome@ucsc.edu.ORCID 0000-0001-9496-7412

Funding

IMMUNOLOGIC STUDY OF GERM GRANULES IN C. ELEGANS EMBRY0SR01GM034059 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI STROME, SUSAN · 1985 to 2020
$8.9M
Training Program/Molecular/Cell/Developmental BiologyT32GM008646 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI STROME, SUSAN · 1999 to 2018
$3.7M
Epigenetic transmission of germ cell fateF31GM125305 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI COCKRUM, CHAD STEVEN · 2018 to 2019
$76k
Transmission of Gamete-Inherited Chromatin StatesF31GM120882 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI KANESHIRO, KIYOMI RAYE · 2017 to 2018
$74k
NIGMS NIH HHS F31 GM120882NIGMS NIH HHS F31 GM125305NIGMS NIH HHS R01 GM034059NIGMS NIH HHS T32 GM008646
6 · The paper itself

Abstract

Transcriptomic approaches have provided a growing set of powerful tools with which to study genome-wide patterns of gene expression. Rapidly evolving technologies enable analysis of transcript abundance data from particular tissues and even single cells. This Primer discusses methods that can be used to collect and profile RNAs from specific tissues or cells, process and analyze high-throughput RNA-sequencing data, and define sets of genes that accurately represent a category, such as tissue-enriched or tissue-specific gene expression.

Indexed as

Computational BiologyAnimalsGene Expression ProfilingGene Expression Regulation, DevelopmentalGenomeHigh-Throughput Nucleotide SequencingOrgan SpecificityRNATranscriptomeRNAGene setsResourcesTranscriptomics

Identifiers

PMID33361089
PMCPMC7774889

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.