Evidence map›Paper›PMID 30143029›Full record

ArticleGenome biology2018

HiGlass: web-based visual exploration and analysis of genome interaction maps.

Peter Kerpedjiev, Nezar Abdennur, Fritz Lekschas, Chuck McCallum, Kasper Dinkla, Hendrik Strobelt, Jacob M Luber, Scott B Ouellette, Alaleh Azhir, Nikhil Kumar and 7 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1,564 papers.

0numbers the graph read from it
0cells of the map it votes in
1,564citing 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

1,564 citing papers in PubMed.

  1. Article
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  9. Programmed DNA elimination was present in the last common ancestor ofbioRxiv : the preprint server for biology · 2026
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1,504 more citing papers are in PubMed but not listed here.

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

17 authors.

Peter KerpedjievDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Nezar AbdennurComputational and Systems Biology Program, MIT, Cambridge, USA.
Fritz LekschasSchool of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA.
Chuck McCallumDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Kasper DinklaSchool of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA.
Hendrik StrobeltSchool of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA.
Jacob M LuberDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Scott B OuelletteDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Alaleh AzhirDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Nikhil KumarDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Jeewon HwangSchool of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA.
Soohyun LeeDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Burak H AlverDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Hanspeter PfisterSchool of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA.
Leonid A MirnyDepartment of Physics, MIT, Cambridge, USA.
Peter J ParkDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA.
Nils GehlenborgDepartment of Biomedical Informatics, Harvard Medical School, Countway Library, 10 Shattuck St, Boston, MA, 02115, USA. nils@hms.harvard.edu.ORCID 0000-0003-0327-8297

Funding

4D Nucleome Network Data Coordination and Integration CenterU01CA200059 · NCI · HARVARD MEDICAL SCHOOL · PI PARK, PETER J · 2015 to 2024
$24.4M
TrainingU54HG007963 · NHGRI · HARVARD MEDICAL SCHOOL · PI KOHANE, ISAAC S. · 2014 to 2018
$18.3M
Training Program in Bioinformatics and Integrative GenomicsT32HG002295 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI Peter J Park · 2001 to 2026
$15.8M
Center for 3D Structure and Physics of the GenomeU54DK107980 · NIDDK · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI DEKKER, JOB · 2015 to 2019
$14.9M
Visualization of (Epi)Genomic Data for Discovery of Disease-Associated VariantsR00HG007583 · NHGRI · HARVARD MEDICAL SCHOOL · PI GEHLENBORG, NILS · 2015 to 2017
$727k
National Cancer Institute (US) U01 CA200059National Human Genome Research Institute (US) R00 HG007583National Human Genome Research Institute (US) U54 HG007963NCI NIH HHS U01 CA200059NHGRI NIH HHS R00 HG007583NHGRI NIH HHS T32 HG002295NHGRI NIH HHS U54 HG007963NIDDK NIH HHS U54 DK107980
6 · The paper itself

Abstract

We present HiGlass, an open source visualization tool built on web technologies that provides a rich interface for rapid, multiplex, and multiscale navigation of 2D genomic maps alongside 1D genomic tracks, allowing users to combine various data types, synchronize multiple visualization modalities, and share fully customizable views with others. We demonstrate its utility in exploring different experimental conditions, comparing the results of analyses, and creating interactive snapshots to share with collaborators and the broader public. HiGlass is accessible online at http://higlass.io and is also available as a containerized application that can be run on any platform.

Indexed as

Chromosome MappingGenomeInternetUser-Computer InterfaceChromosome conformationData visualizationGenomicsHi-C

Identifiers

PMID30143029
PMCPMC6109259

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.