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MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays

Standard

MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays. / Welsh, Joshua A; Killingsworth, Bryce; Kepley, Julia; Traynor, Tim; Cook, Sean; Savage, Jason; Marte, Jenn; Lee, Min-Jung; Maeng, Hoyoung M; Pleet, Michelle L; Magana, Setty; Gorgens, André; Maire, Cecile L; Lamszus, Katrin; Ricklefs, Franz L; Merino, Maria J; Linehan, W Marston; Greten, Tim; Cooks, Tomer; Harris, Curtis C; Apolo, Andrea; Abdel-Mageed, Asim; Ivanov, Alexander R; Trepel, Jane B; Roth, Matthew; Tkach, Mercedes; Milosavljevic, Aleksandar; Théry, Clotilde; LeBlanc, Amy; Berzofsky, Jay A; Ruppin, Eytan; Aldape, Kenneth; Camphausen, Kevin; Gulley, James L; Ghiran, Ionita; Jacobson, Steve; Jones, Jennifer C.

in: CELL REP METHODS, Jahrgang 2, Nr. 1, 100136, 24.01.2022.

Publikationen: SCORING: Beitrag in Fachzeitschrift/Zeitung › SCORING: Zeitschriftenaufsatz › Forschung › Begutachtung

Harvard

Welsh, JA, Killingsworth, B, Kepley, J, Traynor, T, Cook, S, Savage, J, Marte, J, Lee, M-J, Maeng, HM, Pleet, ML, Magana, S, Gorgens, A, Maire, CL, Lamszus, K, Ricklefs, FL, Merino, MJ, Linehan, WM, Greten, T, Cooks, T, Harris, CC, Apolo, A, Abdel-Mageed, A, Ivanov, AR, Trepel, JB, Roth, M, Tkach, M, Milosavljevic, A, Théry, C, LeBlanc, A, Berzofsky, JA, Ruppin, E, Aldape, K, Camphausen, K, Gulley, JL, Ghiran, I, Jacobson, S & Jones, JC 2022, 'MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays', CELL REP METHODS, Jg. 2, Nr. 1, 100136. https://doi.org/10.1016/j.crmeth.2021.100136

APA

Welsh, J. A., Killingsworth, B., Kepley, J., Traynor, T., Cook, S., Savage, J., Marte, J., Lee, M-J., Maeng, H. M., Pleet, M. L., Magana, S., Gorgens, A., Maire, C. L., Lamszus, K., Ricklefs, F. L., Merino, M. J., Linehan, W. M., Greten, T., Cooks, T., ... Jones, J. C. (2022). MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays. CELL REP METHODS, 2(1), [100136]. https://doi.org/10.1016/j.crmeth.2021.100136

Vancouver

Welsh JA, Killingsworth B, Kepley J, Traynor T, Cook S, Savage J et al. MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays. CELL REP METHODS. 2022 Jan 24;2(1). 100136. https://doi.org/10.1016/j.crmeth.2021.100136

Bibtex

@article{91eec97ea96d476fa5f023399d74ea90,
title = "MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays",
abstract = "Extracellular vesicles (EVs) of various types are released or shed from all cells. EVs carry proteins and contain additional protein and nucleic acid cargo that relates to their biogenesis and cell of origin. EV cargo in liquid biopsies is of widespread interest owing to its ability to provide a retrospective snapshot of cell state at the time of EV release. For the purposes of EV cargo analysis and repertoire profiling, multiplex assays are an essential tool in multiparametric analyte studies but are still being developed for high-parameter EV protein detection. Although bead-based EV multiplex analyses offer EV profiling capabilities with conventional flow cytometers, the utilization of EV multiplex assays has been limited by the lack of software analysis tools for such assays. To facilitate robust EV repertoire studies, we developed multiplex analysis post-acquisition analysis (MPAPASS) open-source software for stitched multiplex analysis, EV database-compatible reporting, and visualization of EV repertoires.",
author = "Welsh, {Joshua A} and Bryce Killingsworth and Julia Kepley and Tim Traynor and Sean Cook and Jason Savage and Jenn Marte and Min-Jung Lee and Maeng, {Hoyoung M} and Pleet, {Michelle L} and Setty Magana and Andr{\'e} Gorgens and Maire, {Cecile L} and Katrin Lamszus and Ricklefs, {Franz L} and Merino, {Maria J} and Linehan, {W Marston} and Tim Greten and Tomer Cooks and Harris, {Curtis C} and Andrea Apolo and Asim Abdel-Mageed and Ivanov, {Alexander R} and Trepel, {Jane B} and Matthew Roth and Mercedes Tkach and Aleksandar Milosavljevic and Clotilde Th{\'e}ry and Amy LeBlanc and Berzofsky, {Jay A} and Eytan Ruppin and Kenneth Aldape and Kevin Camphausen and Gulley, {James L} and Ionita Ghiran and Steve Jacobson and Jones, {Jennifer C}",
note = "{\textcopyright} 2022.",
year = "2022",
month = jan,
day = "24",
doi = "10.1016/j.crmeth.2021.100136",
language = "English",
volume = "2",
journal = "CELL REP METHODS",
issn = "2667-2375",
publisher = "Cell Press",
number = "1",

}

RIS

TY - JOUR

T1 - MPAPASS software enables stitched multiplex, multidimensional EV repertoire analysis and a standard framework for reporting bead-based assays

AU - Welsh, Joshua A

AU - Killingsworth, Bryce

AU - Kepley, Julia

AU - Traynor, Tim

AU - Cook, Sean

AU - Savage, Jason

AU - Marte, Jenn

AU - Lee, Min-Jung

AU - Maeng, Hoyoung M

AU - Pleet, Michelle L

AU - Magana, Setty

AU - Gorgens, André

AU - Maire, Cecile L

AU - Lamszus, Katrin

AU - Ricklefs, Franz L

AU - Merino, Maria J

AU - Linehan, W Marston

AU - Greten, Tim

AU - Cooks, Tomer

AU - Harris, Curtis C

AU - Apolo, Andrea

AU - Abdel-Mageed, Asim

AU - Ivanov, Alexander R

AU - Trepel, Jane B

AU - Roth, Matthew

AU - Tkach, Mercedes

AU - Milosavljevic, Aleksandar

AU - Théry, Clotilde

AU - LeBlanc, Amy

AU - Berzofsky, Jay A

AU - Ruppin, Eytan

AU - Aldape, Kenneth

AU - Camphausen, Kevin

AU - Gulley, James L

AU - Ghiran, Ionita

AU - Jacobson, Steve

AU - Jones, Jennifer C

N1 - © 2022.

PY - 2022/1/24

Y1 - 2022/1/24

N2 - Extracellular vesicles (EVs) of various types are released or shed from all cells. EVs carry proteins and contain additional protein and nucleic acid cargo that relates to their biogenesis and cell of origin. EV cargo in liquid biopsies is of widespread interest owing to its ability to provide a retrospective snapshot of cell state at the time of EV release. For the purposes of EV cargo analysis and repertoire profiling, multiplex assays are an essential tool in multiparametric analyte studies but are still being developed for high-parameter EV protein detection. Although bead-based EV multiplex analyses offer EV profiling capabilities with conventional flow cytometers, the utilization of EV multiplex assays has been limited by the lack of software analysis tools for such assays. To facilitate robust EV repertoire studies, we developed multiplex analysis post-acquisition analysis (MPAPASS) open-source software for stitched multiplex analysis, EV database-compatible reporting, and visualization of EV repertoires.

AB - Extracellular vesicles (EVs) of various types are released or shed from all cells. EVs carry proteins and contain additional protein and nucleic acid cargo that relates to their biogenesis and cell of origin. EV cargo in liquid biopsies is of widespread interest owing to its ability to provide a retrospective snapshot of cell state at the time of EV release. For the purposes of EV cargo analysis and repertoire profiling, multiplex assays are an essential tool in multiparametric analyte studies but are still being developed for high-parameter EV protein detection. Although bead-based EV multiplex analyses offer EV profiling capabilities with conventional flow cytometers, the utilization of EV multiplex assays has been limited by the lack of software analysis tools for such assays. To facilitate robust EV repertoire studies, we developed multiplex analysis post-acquisition analysis (MPAPASS) open-source software for stitched multiplex analysis, EV database-compatible reporting, and visualization of EV repertoires.

U2 - 10.1016/j.crmeth.2021.100136

DO - 10.1016/j.crmeth.2021.100136

M3 - SCORING: Journal article

C2 - 35474866

VL - 2

JO - CELL REP METHODS

JF - CELL REP METHODS

SN - 2667-2375

IS - 1

M1 - 100136

ER -