Evidence map›Paper›PMID 23344021›Full record

ArticleInternational journal of molecular sciences2012

Chromosome-specific DNA repeats: rapid identification in silico and validation using fluorescence in situ hybridization.

Joanne H Hsu, Hui Zeng, Kalistyn H Lemke, Aris A Polyzos, Jingly F Weier, Mei Wang, Anna R Lawin-O'Brien, Heinz-Ulrich G Weier, Benjamin O'Brien

Open access · goldAbstract read
In one paragraph

Article in International journal of molecular sciences, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.4field-weighted citation impact, top 32% of its field
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

3 citing papers in PubMed, 6 citations in OpenAlex.

  1. Article
  2. Full Karyotype Interphase Cell Analysis.The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society · 2018
    Article
  3. 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

9 authors at 5 institutions in 3 countries.

Joanne H HsuDepartment of Molecular and Cell Biology, University of California, Berkeley (UCB), Berkeley, CA 94720, USA. jhhsu@berkeley.edu.
Hui Zeng
Kalistyn H Lemke
Aris A Polyzos
Jingly F Weier
Mei Wang
Anna R Lawin-O'Brien
Heinz-Ulrich G Weier
Benjamin O'Brien
Lawrence Berkeley National Laboratory · USCity of Hope · USUniversity of California, San Francisco · USWhipps Cross University Hospital · GBWilliam Harvey Research Institute · GB

Funding

Radiation-induced Thyroid CancerR01CA136685 · NCI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI WEIER, HEINZ-ULRICH GUENTER · 2009 to 2011
$1.1M
Aneuploid Cells in the Human PlacentaR01HD045736 · NICHD · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI WEIER, HEINZ-ULRICH G. · 2004 to 2006
$969k
Accelerating Cancer Research with Single Cell ArraysR21CA132815 · NCI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI WEIER, HEINZ-ULRICH GUENTER · 2008 to 2009
$560k
BAC-FISH Assays for Sensitive Karyotyping of Cancer CellsR21CA123370 · NCI · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI WEIER, HEINZ-ULRICH GUENTER · 2007 to 2008
$384k
NCI NIH HHS R01 CA136685NCI NIH HHS R21 CA123370NCI NIH HHS R21 CA132815NICHD NIH HHS R01 HD045736
6 · The paper itself

Abstract

Chromosome enumeration in interphase and metaphase cells using fluorescence in situ hybridization (FISH) is an established procedure for the rapid and accurate cytogenetic analysis of cell nuclei and polar bodies, the unambiguous gender determination, as well as the definition of tumor-specific signatures. Present bottlenecks in the procedure are a limited number of commercial, non-isotopically labeled probes that can be combined in multiplex FISH assays and the relatively high price and effort to develop additional probes. We describe a streamlined approach for rapid probe definition, synthesis and validation, which is based on the analysis of publicly available DNA sequence information, also known as "database mining". Examples of probe preparation for the human gonosomes and chromosome 16 as a selected autosome outline the probe selection strategy, define a timeline for expedited probe production and compare this novel selection strategy to more conventional probe cloning protocols.

Indexed as

Computer SimulationChromosomes, Artificial, BacterialChromosomes, Human, Pair 16Clone CellsDNA ProbesDNA, SatelliteHumansIn Situ Hybridization, FluorescenceRepetitive Sequences, Nucleic AcidReproducibility of ResultsSex ChromosomesTrisomyDNA ProbesDNA, Satellite

Identifiers

PMID23344021
PMCPMC3565251
OpenAlexW1980856922

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.