Paper · 32192518
VALOR2: characterization of large-scale structural variants using linked-reads.
Karaoğlanoğlu F and 5 others. Genome Biol, 2020. Cited by 16 papers, by iCite.
11 sourcespapers-2026-11-12-0.1.0
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ConductScience Library. VALOR2: characterization of large-scale structural variants using linked-reads. Papers, record 32192518. Release papers-2026-11-12-0.1.0, 12 Nov 2026. https://conductscience.org/library/papers/32192518
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Paper
PubMed's record of the paper, with iCite's citation figures. No abstract is shown.
- Publication types
- Journal Article, Research Support, N.I.H., Extramural, Research Support, Non-U.S. Gov't, Research Support, U.S. Gov't, Non-P.H.S.
- PubMed
Topics9
NLM's MeSH indexing of the paper, its major topics first.
| MeSH term | Major |
|---|---|
| Algorithms | Major topic |
| Genomic Structural Variation | Major topic |
| Software | Major topic |
| Chromosome Duplication | |
| Chromosome Inversion | |
| Cluster Analysis | |
| Humans | |
| Sequence Deletion | |
| Translocation, Genetic |
Source PubMed
Grants1
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.
| Grant, as the record writes it | Agency | Country | NIH project | Stated by |
|---|---|---|---|---|
| T32 GM083937 | NIGMS NIH HHS | United States | T32GM083937 | PubMed and NIH |
Source NIH RePORTER
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.
References57
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 | 30,894,395 | Resolving the full spectrum of human genome variation using Linked-Reads. | Genome Res | 2019 | https://conductscience.org/library/papers/30894395 | PubMed |
| 2 | 19,844,226 | Computational methods for discovering structural variation with next-generation sequencing. | Nat Methods | 2009 | https://conductscience.org/library/papers/19844226 | PubMed |
| 3 | 23,193,291 | DbVar and DGVa: public archives for genomic structural variation. | Nucleic Acids Res | 2013 | https://conductscience.org/library/papers/23193291 | PubMed |
| 4 | 26,829,319 | Haplotyping germline and cancer genomes with high-throughput linked-read sequencing. | Nat Biotechnol | 2016 | https://conductscience.org/library/papers/26829319 | PubMed |
| 5 | 25,355,789 | Characterization of structural variants with single molecule and hybrid sequencing approaches. | Bioinformatics | 2014 | https://conductscience.org/library/papers/25355789 | PubMed |
| 6 | 31,729,472 | Structural variation in the sequencing era. | Nat Rev Genet | 2020 | https://conductscience.org/library/papers/31729472 | PubMed |
| 7 | 19,561,018 | Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads. | Bioinformatics | 2009 | https://conductscience.org/library/papers/19561018 | PubMed |
| 8 | 29,431,738 | Nanopore sequencing and assembly of a human genome with ultra-long reads. | Nat Biotechnol | 2018 | https://conductscience.org/library/papers/29431738 | PubMed |
| 9 | 20,110,278 | BEDTools: a flexible suite of utilities for comparing genomic features. | Bioinformatics | 2010 | https://conductscience.org/library/papers/20110278 | PubMed |
| 10 | 20,059,347 | Structural variation in the human genome and its role in disease. | Annu Rev Med | 2010 | https://conductscience.org/library/papers/20059347 | PubMed |
1 to 10 of 57
See all 57 referencesCited by12
The papers in our copy of PubMed whose reference list names this one, newest first. iCite, which reads more sources, counts 16 citations.
| PMID | Title | Journal | Year | In Papers | Source |
|---|---|---|---|---|---|
| 42,369,227 | Detection and evaluation of copy number variation using both linked-read and short-read sequencing in New Zealand dairy cattle. | Front Genet | 2026 | https://conductscience.org/library/papers/42369227 | PubMed |
| 40,265,112 | Long-read sequencing reveals novel structural variation markers for key agronomic and quality traits of food-grade soybean. | Front Plant Sci | 2025 | https://conductscience.org/library/papers/40265112 | PubMed |
| 38,905,513 | The Bioinformatic Applications of Hi-C and Linked Reads. | Genomics Proteomics Bioinformatics | 2024 | https://conductscience.org/library/papers/38905513 | PubMed |
| 38,869,148 | LRTK: a platform agnostic toolkit for linked-read analysis of both human genome and metagenome. | Gigascience | 2024 | https://conductscience.org/library/papers/38869148 | PubMed |
| 37,941,142 | BLR: a flexible pipeline for haplotype analysis of multiple linked-read technologies. | Nucleic Acids Res | 2023 | https://conductscience.org/library/papers/37941142 | PubMed |
| 37,452,278 | MTG-Link: leveraging barcode information from linked-reads to assemble specific loci. | BMC Bioinformatics | 2023 | https://conductscience.org/library/papers/37452278 | PubMed |
| 36,029,318 | Structural variants in the barley gene pool: precision and sensitivity to detect them using short-read sequencing and their association with gene expression and phenotypic variation. | Theor Appl Genet | 2022 | https://conductscience.org/library/papers/36029318 | PubMed |
| 35,924,489 | Efficient detection and assembly of non-reference DNA sequences with synthetic long reads. | Nucleic Acids Res | 2022 | https://conductscience.org/library/papers/35924489 | PubMed |
| 35,627,213 | Initial Analysis of Structural Variation Detections in Cattle Using Long-Read Sequencing Methods. | Genes (Basel) | 2022 | https://conductscience.org/library/papers/35627213 | PubMed |
| 32,541,955 | A robust benchmark for detection of germline large deletions and insertions. | Nat Biotechnol | 2020 | https://conductscience.org/library/papers/32541955 | PubMed |
1 to 10 of 12
See all 12 cited byGenes7
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 |
|---|---|---|---|---|
| CLEC18B | 497,190 | PubTator's text mining | https://conductscience.org/library/genes/497190 | NCBI Gene |
| CNMD | 11,061 | PubTator's text mining | https://conductscience.org/library/genes/11061 | NCBI Gene |
| CROCC | 9,696 | PubTator's text mining | https://conductscience.org/library/genes/9696 | NCBI Gene |
| EPHX1 | 2,052 | PubTator's text mining | https://conductscience.org/library/genes/2052 | NCBI Gene |
| OR4F5 | 79,501 | PubTator's text mining | https://conductscience.org/library/genes/79501 | NCBI Gene |
| UGT2B17 | 7,367 | PubTator's text mining | https://conductscience.org/library/genes/7367 | NCBI Gene |
| UGT2B28 | 54,490 | PubTator's text mining | https://conductscience.org/library/genes/54490 | NCBI Gene |
Drugs0
The drugs whose trials, in the Pipelines release, list the paper.
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.
- Trials
- 2026-11-12
- Gene search
- 2026-11-11
- Pipelines
- 2026-09-18
Sources 11
- ChEMBL, through Open TargetsCC BY-SA 3.0
- 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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