Paper · 19477992

A geometric approach for classification and comparison of structural variants.

Sindi S and 3 others. Bioinformatics, 2009. Cited by 111 papers, by iCite.

11 sourcespapers-2026-11-12-0.1.0

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ConductScience Library. A geometric approach for classification and comparison of structural variants. Papers, record 19477992. Release papers-2026-11-12-0.1.0, 12 Nov 2026. https://conductscience.org/library/papers/19477992

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Paper

PubMed's record of the paper, with iCite's citation figures. No abstract is shown.

Title: A geometric approach for classification and comparison of structural variants.; PubMed
Journal: Bioinformatics; PubMed
Year: 2009; PubMed
Publication types: Comparative Study, Journal Article, Research Support, Non-U.S. Gov't, Research Support, U.S. Gov't, Non-P.H.S.; PubMed
PubMed: https://pubmed.ncbi.nlm.nih.gov/19477992/; PubMed
DOI: https://doi.org/10.1093/bioinformatics/btp208; PubMed
PMC: https://pmc.ncbi.nlm.nih.gov/articles/PMC2687962/; PubMed
The journal: https://conductscience.org/library/journal-index/9808944; PubMed
Citations, by iCite: 111; iCite
Relative citation ratio, by iCite: 2.05; iCite
Revised in PubMed: 2021-10-20; PubMed

Authors4

The authors in the order PubMed's record lists them, with the ORCID iDs it states.

Order	Author	Forename
1	Sindi S	Suzanne
2	Helman E	Elena
3	Bashir A	Ali
4	Raphael BJ	Benjamin J

Source PubMed

Topics8

NLM's MeSH indexing of the paper, its major topics first.

MeSH term	Major
Genetic Variation	Major topic
Genomics	Major topic
Algorithms
Base Sequence
Comparative Genomic Hybridization
DNA
Genome, Human
Humans

Source PubMed

Grants0

Each grant PubMed's record writes, matched to the NIH project NIH's grant and paper links name for this paper, and each of those links the record does not write.

None in this release.

Trials0

The trials whose ClinicalTrials.gov record lists the paper, and the trial numbers the paper's PubMed record names.

None in this release.

Comments and corrections0

PubMed's comments and corrections, NLM's own indexing: retractions first, then expressions of concern, errata and updates, and comments last.

None in this release.

References30

The papers the reference list in PubMed's record names, those in our copy of PubMed, in the list's order.

Order	PMID	Title	Journal	Year	In Papers	Source
1	18,776,908	Integrated detection and population-genetic analysis of SNPs and copy number variation.	Nat Genet	2008	https://conductscience.org/library/papers/18776908	PubMed
2	18,438,408	Identification of somatically acquired rearrangements in cancer using genome-wide massively parallel paired-end sequencing.	Nat Genet	2008	https://conductscience.org/library/papers/18438408	PubMed
3	18,421,352	The complete genome of an individual by massively parallel DNA sequencing.	Nature	2008	https://conductscience.org/library/papers/18421352	PubMed
4	17,597,783	Challenges and standards in integrating surveys of structural variation.	Nat Genet	2007	https://conductscience.org/library/papers/17597783	PubMed
5	18,364,049	A sequence-based survey of the complex structural organization of tumor genomes.	Genome Biol	2008	https://conductscience.org/library/papers/18364049	PubMed
6	17,901,297	Paired-end mapping reveals extensive structural variation in the human genome.	Science	2007	https://conductscience.org/library/papers/17901297	PubMed
7	16,327,808	A high-resolution survey of deletion polymorphism in the human genome.	Nat Genet	2006	https://conductscience.org/library/papers/16327808	PubMed
8	17,122,850	Global variation in copy number in the human genome.	Nature	2006	https://conductscience.org/library/papers/17122850	PubMed
9	18,776,910	Systematic assessment of copy number variant detection via genome-wide SNP genotyping.	Nat Genet	2008	https://conductscience.org/library/papers/18776910	PubMed
10	15,895,083	Fine-scale structural variation of the human genome.	Nat Genet	2005	https://conductscience.org/library/papers/15895083	PubMed

1 to 10 of 30

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Cited by77

The papers in our copy of PubMed whose reference list names this one, newest first. iCite, which reads more sources, counts 111 citations.

PMID	Title	Journal	Year	In Papers	Source
42,323,877	The sequence alignment problem: boundary conditions as the unifying principle.	Brief Bioinform	2026	https://conductscience.org/library/papers/42323877	PubMed
40,123,798	Benchmarking strategies for CNV calling from whole genome bisulfite data in humans.	Comput Struct Biotechnol J	2025	https://conductscience.org/library/papers/40123798	PubMed
40,121,435	Multi-tool copy number detection highlights common body size-associated variants in miniature pig breeds from different geographical regions.	BMC Genomics	2025	https://conductscience.org/library/papers/40121435	PubMed
39,297,879	VISTA: an integrated framework for structural variant discovery.	Brief Bioinform	2024	https://conductscience.org/library/papers/39297879	PubMed
36,550,274	SVDSS: structural variation discovery in hard-to-call genomic regions using sample-specific strings from accurate long reads.	Nat Methods	2023	https://conductscience.org/library/papers/36550274	PubMed
35,753,701	A comprehensive benchmarking of WGS-based deletion structural variant callers.	Brief Bioinform	2022	https://conductscience.org/library/papers/35753701	PubMed
34,484,298	CNV-MEANN: A Neural Network and Mind Evolutionary Algorithm-Based Detection of Copy Number Variations From Next-Generation Sequencing Data.	Front Genet	2021	https://conductscience.org/library/papers/34484298	PubMed
33,995,493	SIns: A Novel Insertion Detection Approach Based on Soft-Clipped Reads.	Front Genet	2021	https://conductscience.org/library/papers/33995493	PubMed
32,425,985	Review: Understanding Rare Genetic Diseases in Low Resource Regions Like Jammu and Kashmir - India.	Front Genet	2020	https://conductscience.org/library/papers/32425985	PubMed
32,192,518	VALOR2: characterization of large-scale structural variants using linked-reads.	Genome Biol	2020	https://conductscience.org/library/papers/32192518	PubMed

1 to 10 of 77

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Genes4

The genes the Gene search release ties to the paper: Swiss-Prot's references first, then PubTator's text mining.

Gene	NCBI Gene ID	Linked by	In Genes	Source
ABCA5	23,461	PubTator's text mining	https://conductscience.org/library/genes/23461	NCBI Gene
ABCA7	10,347	PubTator's text mining	https://conductscience.org/library/genes/10347	NCBI Gene
ABCB7	22	PubTator's text mining	https://conductscience.org/library/genes/22	NCBI Gene
FIG4	9,896	PubTator's text mining	https://conductscience.org/library/genes/9896	NCBI Gene

Drugs0

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None in this release.

Data0

The data bank entries PubMed's record names. Trial numbers are under Trials.

None in this release.

Data dates

The date of each source this release read.

PubMed: 2026-11-06; PubMed
iCite: 2026-11-05; iCite
PMC's ID file: 2026-11-05; PMC's ID file
NIH RePORTER's grant and paper links: 2026-11-01; NIH RePORTER's grant and paper links
Trials: 2026-11-12
Gene search: 2026-11-11
Pipelines: 2026-09-18

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ClinicalTrials.govNo license stated
HGNCCC0
iCiteCC BY 4.0
NCBI GenePublic domain (US government)
NIH RePORTER's grant and paper linksPublic domain
Open TargetsCC0 1.0
PMC's ID filePublic domain (US government)
PubMedNLM's terms
PubTator 3Public domain
UniProtCC BY 4.0

Each source's terms

ChEMBL, through Open TargetsCC BY-SA 3.0, for the parts from ChEMBL. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
ClinicalTrials.govnone stated
HGNCCC0: https://www.genenames.org/about/license/
iCiteCC BY 4.0
NCBI GeneNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
NIH RePORTER's grant and paper linksPublic domain (NIH RePORTER)
Open TargetsCC0 1.0. Open Targets asks that users cite its latest paper: Buniello et al. 2025, Open Targets Platform: facilitating therapeutic hypotheses building in drug discovery, Nucleic Acids Research 53(D1):D1467, PMID 39657122. Read on 8 Nov 2026 at https://platform-docs.opentargets.org/licence
PMC's ID fileNone named for the file. NCBI says information created by or for the US government on its site is in the public domain, and asks that NLM be acknowledged: https://www.ncbi.nlm.nih.gov/home/about/policies/
PubMedNLM's terms
PubTator 3Public domain
UniProtCC BY 4.0. UniProt's licence file: "All databases and documents in the UniProt FTP directory may be copied and redistributed freely, without advance permission, provided that this copyright statement is reproduced with each copy." UniProt asks that users cite its latest paper: The UniProt Consortium, UniProt: the Universal Protein Knowledgebase in 2025, Nucleic Acids Research 53:D609-D617, https://doi.org/10.1093/nar/gkae1010. Read on 9 Nov 2026 at https://www.uniprot.org/help/license

ClinicalTrials.gov's data carry an international copyright outside the United States: https://clinicaltrials.gov/about-site/terms-conditions.

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