smMIP statistics

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Citations per year

Number of citations per year for the bioinformatics software tool smMIP
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This map represents all the scientific publications referring to smMIP per scientific context
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smMIP specifications

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Unique identifier OMICS_33183
Name smMIP
Alternative name single molecule Molecular Inversion Probe
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

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Publication for single molecule Molecular Inversion Probe

smMIP citations

 (11)
library_books

Ultrasensitive detection of acute myeloid leukemia minimal residual disease using single molecule molecular inversion probes

2017
Haematologica
PMCID: 5685235
PMID: 28572161
DOI: 10.3324/haematol.2017.169136

[…] sequencing-based AML MRD detection, herein we adapt single molecule molecular inversion probes (smMIPs), in order to interrogate common genetic lesions in AML with ultrasensitive limits of detection. smMIP technology unites multiplexed targeted sequencing with an error correction strategy based on unique molecular identifiers (UMIDs), degenerate oligonucleotide barcodes that mark sequence reads de […]

library_books

Hotspots of missense mutation identify novel neurodevelopmental disorder genes and functional domains

2017
Nat Neurosci
PMCID: 5539915
PMID: 28628100
DOI: 10.1038/nn.4589

[…] smMIPs were designed with the MIPgen program to capture sequences of interest. To maximize coverage, we designed one smMIP for each strand for each target. We first used smMIPs targeting 24 sites to sequence eight cohorts containing a total of 6,058 cases and 2,854 controls. We also used smMIPs targeting two amino a […]

library_books

Quantification of differential gene expression by multiplexed targeted resequencing of cDNA

2017
Nat Commun
PMCID: 5424154
PMID: 28474677
DOI: 10.1038/ncomms15190

[…] n used version 2.0 of the MipGen software to calculate the predicted performance score. For each SNP we designed two smMIPs, covering as many annotated transcripts as possible while always taking the smMIP with the highest predicted performance score. All 64 selected smMIPs had predicted performance score of >0.50. The designed cDNA-smMIPs are given in . […]

library_books

Novel BRCA1 and BRCA2 Tumor Test as Basis for Treatment Decisions and Referral for Genetic Counselling of Patients with Ovarian Carcinomas

2016
Hum Mutat
PMCID: 5248611
PMID: 27767231
DOI: 10.1002/humu.23137

[…] tation analysis in blood only if germline mutations in tumor DNA can be assessed efficiently. Here, we show that reliable analysis of germline and somatic mutations is possible using a combination of smMIP‐based mutation detection and MLPA on DNA isolated from FFPE OCs.Due to the high a priori risk of 10%–15% to carry a germline BRCA1 or BRCA2 mutation, all new OC patients are now eligible for ger […]

library_books

Emergence of a Homo sapiens specific gene family and chromosome 16p11.2 CNV susceptibility

2016
Nature
PMCID: 4988886
PMID: 27487209
DOI: 10.1038/nature19075

[…] of transcripts including all human RefSeq transcripts with the three BOLA2 isoforms. Breakpoints of chromosome 16p11.2 rearrangements were refined using Illumina whole-genome shotgun sequencing, and smMIP analysis,, of patient DNA obtained from the Simons Variation in Individuals Project (Simons VIP) and Simons Simplex Collection (SSC). All procedures for clinical assessment and blood extraction […]

library_books

Genome Wide Characterization of Major Intrinsic Proteins in Four Grass Plants and Their Non Aqua Transport Selectivity Profiles with Comparative Perspective

2016
PLoS One
PMCID: 4915720
PMID: 27327960
DOI: 10.1371/journal.pone.0157735

[…] in two grass plants such as rice (OsMIP) and maize (ZmMIP) and six non-grass plants such as soybean (GmMIP), poplar (PtMIP), cotton (GhMIP), Arabidopsis thaliana (AtMIP), Selaginella moellendorffii (SmMIP) and Physcomitrella patens (PpMIP). […]


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smMIP institution(s)
McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA; Department of Genetics, Washington University School of Medicine, St. Louis, MO, USA; Department of Laboratory Medicine, University of Washington, Seattle, WA, USA; Department of Medicine, Division of Hematology-Oncology, University of California, Los Angeles, CA, USA; Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO, USA; Division of Oncology, Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA; Department of Surgery/Otolaryngology, Brigham and Women's Hospital and Dana-Farber Cancer Institute, Boston, MA, USA
smMIP funding source(s)
Supported by the National Cancer Institute (T32GM007200 and U01CA209936), the Genomics of AML PPG (T. Ley, PI, P01 CA101937), the National Comprehensive Cancer Network Oncology Research Program, general research support provided by Novartis Pharmaceutical Corporation (Novartis), the V Foundation for Cancer Research, the National Institute of Dental and Craniofacial Research (NIH NIDCR R01DE024403), the National Cancer Institute (NIH NCI U01CA231844), the National Human Genome Research Institute (NIH NHGRI R00HG007940), the National Cancer Institute (NIH NCI R33CA222344), the National Cancer Institute (NIH NCIU01CA209936 and NIH NCI U01CA231844), a Cancer Moonshot specifically, an Activities to Promote Technology Research Collaborations (APTRC) for Cancer Research (Admin Supp) award under parent awards (R33CA222344 and U01CA209936).

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