Evidence map›Paper›PMID 39620275›Full record

ArticleNucleus (Austin, Tex.)2024

Locus-specific differential expression of human satellite sequences in the nuclei of cancer cells and heat-shocked cells.

Christina Rabeler, Nicholas Paterna, Rajiv Potluri, Lia R D'Alessandro, Anusha Bhatia, Shu Yi Chen, Johanna Lee, Bereketab Abeje, Benjamin Lipchin, Benjamin R Carone and 1 more

Erratum issuedAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nucleus (Austin, Tex.), 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Noncoding RNAs in nuclear organization.Nucleus (Austin, Tex.) · 2025
    Article
  2. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

11 authors.

Christina RabelerBiology Department, Swarthmore College, Swarthmore, PA, USA.
Nicholas PaternaDepartment of Biology, Rowan University, Glassboro, NJ, USA.
Rajiv PotluriBiology Department, Swarthmore College, Swarthmore, PA, USA.
Lia R D'AlessandroBiology Department, Swarthmore College, Swarthmore, PA, USA.
Anusha BhatiaBiology Department, Swarthmore College, Swarthmore, PA, USA.
Shu Yi ChenBiology Department, Swarthmore College, Swarthmore, PA, USA.
Johanna LeeBiology Department, Swarthmore College, Swarthmore, PA, USA.
Bereketab AbejeBiology Department, Swarthmore College, Swarthmore, PA, USA.
Benjamin LipchinBiology Department, Swarthmore College, Swarthmore, PA, USA.
Benjamin R CaroneDepartment of Biology, Rowan University, Glassboro, NJ, USA.ORCID 0000-0002-9822-4218
Dawn M CaroneBiology Department, Swarthmore College, Swarthmore, PA, USA.ORCID 0000-0002-4362-6690

Funding

Functional Analysis of Locus-Specific Pericentric Satellite ExpressionR15GM134495 · NIGMS · SWARTHMORE COLLEGE · PI CARONE, DAWN M. · 2019 to 2024
$843k
Andor Dragonfly 201 Spinning Disk Confocal Microscope SystemS10OD032124 · OD · ROWAN UNIVERSITY · PI CARONE, BENJAMIN R. · 2022 to 2022
$244k
NIGMS NIH HHS R15 GM134495NIH HHS S10 OD032124
6 · The paper itself

Abstract

Human satellitess(HSats) are pericentric, tandemly repeating satellite DNA sequences in the human genome. While silent in normal cells, a subset of HSat2 noncoding RNA is expressed and accumulates in the nucleus of cancer cells. We developed a FISH-based approach for identification of the distribution of three subfamilies of HSat2 (A1, A2, B) sequences on individual human chromosomes. Further, using the HSat subfamily annotations in the T2T completed centromere satellite (CenSat) sequence, we isolated, defined and mapped differentially expressed sequence variants of nuclear-restricted HSat2 and HSat3 RNA from cancer cell lines and heat-shocked cells. We identified chromosome-specific and subfamily-specific expression of HSat2 and HSat3 and established a computational pipeline for differential expression analysis of tandemly repeated satellite sequences. Results suggest the differential expression of chromosome-specific HSat2 arrays in the human genome may underlie their accumulation in cancer cells and that specific HSat3 loci are upregulated upon heat shock.

Indexed as

Cell NucleusDNA, SatelliteHeat-Shock ResponseCell Line, TumorGene Expression Regulation, NeoplasticGenetic LociHumansIn Situ Hybridization, FluorescenceNeoplasmsDNA, SatelliteCancercentromereheat shocknucleuspericentromererepetitive DNARNA-seqSatellite DNA

Identifiers

PMID39620275
PMCPMC11622622

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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.