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Search Publications by: Peter M. Vallone (Fed)

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Displaying 1 - 25 of 98

Development of Publicly Available Forensic DNA Sequence Mixture Data

March 12, 2025
Author(s)
Erica Romsos, Kevin Kiesler, Carolyn Steffen, Lisa Borsuk, Sarah Riman, Lauren Mullen, Jodi Irwin, Peter Vallone, Katherine Gettings
Background: In 2018, the Next-Generation Sequencing Committee of SWGDAM queried bioinformatic and statistical interpretation method developers regarding data needs for the development of sequence-based probabilistic genotyping software. Methods: Based on

The Application of Digital PCR as a Reference Measurement Procedure to Support the Accuracy of Quality Assurance for Infectious Disease Molecular Diagnostic Testing

December 26, 2024
Author(s)
Samreen Falak, Denise O'Sullivan, Megan Cleveland, Simon Cowen, Eloise Busby, Alison Devonshire, Esmeralda Valiente, Gerwyn Jones, Martin Kammel, Mojca Milavec, Laura Vierbaum, Ingo Schellenberg, Heinz Zeichhardt, Andreas Kummrow, Peter Vallone, Rainer Macdonald, Jim Huggett
Background Nucleic Acid Amplification Tests (NAATs) are used to diagnose many infectious diseases. They are typically sensitive and specific and can be quickly developed and adapted. It is more challenging to develop standards to ensure NAATs perform

DNA Mixture Interpretation: A NIST Scientific Foundation Review

December 18, 2024
Author(s)
John Butler, Hariharan Iyer, Richard Press, Melissa Taylor, Peter Vallone, Sheila Willis
Improvements in DNA testing methods have allowed forensic scientists to reduce the quantity of DNA required for profiling an individual. Today, DNA profiles can be generated from a few skin cells. This increased sensitivity has extended the usefulness of

Development of a Forensic DNA Research Grade Test Material

October 16, 2024
Author(s)
Erica Romsos, Lisa Borsuk, Carolyn Steffen, Sarah Riman, Kevin Kiesler, Peter Vallone
Advancements in forensic DNA typing technology and methods have resulted in increased sensitivity and, while beneficial, carry the weight of more challenging profile interpretation. In response, the forensic DNA community has often requested more complex

A collaborative study on the precision of the Markov chain Monte Carlo algorithms used for DNA profile interpretation

June 19, 2024
Author(s)
Sarah Riman, Jo-Anne Bright, Kaitlin Huffman, Lilliana Moreno, Sicen Liu, Asmitha Sathya, Peter Vallone
Several fully continuous probabilistic genotyping software (PGS) use Markov chain Monte Carlo algorithms (MCMC) to assign weights to different proposed genotype combinations at a locus. Replicate interpretations of the same profile in these software are

Ultrasensitive sequencing of STR markers utilizing unique molecular identifiers and the SiMSen-Seq method

April 3, 2024
Author(s)
Maja Sidstedt, Arvid Gynna, Kevin Kiesler, Linda Jansson, Becky Steffen, Joakim Hakansson, Gustav Johansson, Yalda Bogestal, Andreas Tillmar, Peter Radstrom, Anders Stahlberg, Peter Vallone, Johannes Hedman
Massively parallel sequencing (MPS) is increasingly applied in forensic short tandem repeat (STR) analysis. The presence of stutter artefacts and other PCR or sequencing errors in the MPS-STR data partly limits the detection of low DNA amounts, e.g., in

Digital PCR for the Characterization of Reference Materials

February 14, 2024
Author(s)
Megan Cleveland, Hua-Jun He, Mojca Milavec, Young-Kyung Bae, Peter Vallone, Jim Huggett
Well characterized reference materials are essential to ensuring the harmonization and accuracy of nucleic acid-based tests (such as qPCR); digital PCR (dPCR) can measure the absolute concentration of a specific nucleic acid sequence in a background of non

Results of German external quality assessment schemes for SARS-CoV-2 antigen detection

August 14, 2023
Author(s)
Laura Vierbaum, Nathalie Wojtalewicz, Peter Grunert, Anika Zimmerman, Annemarie Scholz, Sabine Goseberg, Patricia Kaiser, Ulf Duehring, Christian Drosten, Victor Max Corman, Daniela Niemeyer, Holger F. Rabenau, Martin Obermeier, Andreas Nitsche, Janine Michel, Jim Huggett, Denise O'Sullivan, Simon Cowen, Peter Vallone, Megan Cleveland, Samreen Falak, Andreas Kummrow, Ingo Schellenberg, Heinz Zeichhardt, Martin Kammel
The COVID-19 pandemic illustrated the important role of diagnostic tests, including lateral flow tests (LFTs), in identifying patients and their contacts to slow the spread of infections. INSTAND performed external quality assessments (EQA) for SARS-CoV-2

Deep Sequencing and Molecular Characterisation of BK Virus and JC Virus WHO International Reference Materials for Clinical Diagnostic Use

May 30, 2023
Author(s)
Sheila Govind, Martin Fritzsche, Adrian Jenkins, Megan Cleveland, Peter Vallone, Neil Almond, Clare Morris, Neil Berry
Reactivation of JC and BK polyomaviruses during immunosuppressive transplantation procedures can lead to adverse clinical outcomes. In renal transplant recipients BKV-associated nephropathy can result in graft loss, while prolonged immunomodulatory drug

U.S. population data for 94 identity informative SNP loci

May 15, 2023
Author(s)
Kevin Kiesler, Lisa Borsuk, Becky Steffen, Peter Vallone, Katherine Gettings
The U.S. National Institute of Standards and Technology analyzed a set of 1036 samples representing four major U.S. population groups (African American, Asian American, Caucasian, and Hispanic) with the ForenSeq DNA Signature Prep Kit, DNA primer mix B

Rapid Production and Free Distribution of a Synthetic RNA Material to Support SARS-CoV-2 Molecular Diagnostic Testing

May 3, 2023
Author(s)
Megan Cleveland, Erica Romsos, Becky Steffen, Nathanael David Olson, Stephanie Servetas, William Valiant, Peter Vallone
In response to the COVID-19 pandemic, the National Institute of Standards and Technology released a synthetic RNA material for SARS-CoV-2 in June 2020. The goal was to rapidly produce a material to support molecular diagnostic testing applications. This

MAKE IT "SNPPY" - UPDATES TO SRM 2391D: PCR-BASED DNA PROFILING STANDARD

December 16, 2022
Author(s)
Becky Steffen, Erica Romsos, Kevin Kiesler, Lisa Borsuk, Katherine Gettings, Peter Vallone
Standard Reference Material (SRM) 2391d: PCR-Based DNA Profiling Standard was released to the forensic community in 2019. Next Generation Sequencing (NGS) was used as the primary method of certification, where certified values were assigned when a high

STRSeq: FAQ for submitting

December 1, 2022
Author(s)
Lisa Borsuk, Peter Vallone, Katherine Gettings
The STR sequencing project was developed due to the necessity of publicly sharing sequencing information about Short Tandem Repeats (STR) associated with human identification. Next Generation Sequencing (NGS) or Massively Parallel Sequencing (MPS) is

Population data for 94 identity SNPs in four U.S. population groups

September 23, 2022
Author(s)
Kevin Kiesler, Lisa Borsuk, Becky Steffen, Katherine Gettings, Peter Vallone
The U.S. National Institute of Standards and Technology (NIST) sequenced 1036 human DNA samples from four United States population groups (African American, Asian, Hispanic, and Caucasian) using the ForenSeq DNA Signature Prep Kit with Primer Mix B (DPMB)

Reference Material 8376 Microbial Pathogen DNA Standards for Detection and Identification

June 1, 2022
Author(s)
Jason Kralj, Dieter Tourlousse, Monique Hunter, Erica Romsos, Blaza Toman, Peter Vallone, Scott Jackson
Reference Material (RM) 8376 is intended for NGS-based measurements quantitative to the chromosome. A unit of RM 8376 consists of 20 components (A-T, 19 bacteria and 1 human) each containing well-characterized DNA in 10 mmol/L Tris-HCl, 1 mmol/L EDTA pH 8

Massively parallel sequencing data of 31 autosomal STR loci obtained using the Precision ID GlobalFiler NGS STR Panel v2 for 82 Japanese population samples

April 29, 2022
Author(s)
Tetsushi Kitayama, Kevin Kiesler, Takashi Fukagawa, Haruhiko Watahiki, Yusuke Mita, Koji Fujii, Kazumasa Sekiguchi, Peter Vallone, Natsuko Mizuno
Allele frequencies for 31 autosomal short tandem repeat (STR) loci (CSF1PO, D10S1248, D12ATA63, D12S391, D13S317, D14S1434, D16S539, D18S51, D19S433, D1S1656, D1S1677, D21S11, D22S1045, D2S1338, D2S1776, D2S441, D3S1358, D3S4529, D4S2408, D5S2800, D5S818

A Roadmap for LIMS at NIST Material Measurement Laboratory

April 11, 2022
Author(s)
Gretchen Greene, Jared Ragland, Zachary Trautt, June W. Lau, Raymond Plante, Joshua Taillon, Adam Abel Creuziger, Chandler A. Becker, Joe Bennett, Niksa Blonder, Lisa Borsuk, Carelyn E. Campbell, Adam Friss, Lucas Hale, Michael Halter, Robert Hanisch, Gary R. Hardin, Lyle E. Levine, Samantha Maragh, Sierra Miller, Chris Muzny, Marcus William Newrock, John Perkins, Anne L. Plant, Bruce D. Ravel, David J. Ross, John Henry J. Scott, Christopher Szakal, Alessandro Tona, Peter Vallone
Instrumentation generates data faster and in higher quantity than ever before, and interlaboratory research is in historic demand domestically and internationally to stimulate economic innovation. Strategic mission needs of the NIST Material Measurement

RNA reference materials with defined viral RNA loads of SARS-CoV-2 - A useful tool towards a better PCR assay harmonization

January 20, 2022
Author(s)
Laura Vierbaum, Nathalie Wojtalewicz, Vanessa Lindig, Ulf Duhring, Hans-Peter Grunert, Christian Drosten, Victor Corman, Daniela Niemeyer, Sandra Ciesek, Holger Rabenau, Annemarie Berger, Martin Obermeier, Andreas Nitsche, Janine Michel, Martin Mielke, Jim Huggett, Denise O'Sullivan, Simon Cowen, Megan Cleveland, Peter Vallone, Samreen Falak, Andreas Kummrow, Thomas Keller, Ingo Schellenberg, Heinz Zeichhardt, Martin Kammel
The outbreak and pandemic spread of SARS-CoV-2, the cause of the novel coronavirus disease (COVID-19), led to the need for a reliable detection method to track the circulation of this virus. After introducing PCR methods for genome detection of SARS-CoV-2