Swati Parekh
Max Planck Society
32 Papers
36 Citations
Swati Parekh is an academic researcher from Max Planck Society. The author has contributed to research in topics: Biology & Chromatin. The author has an hindex of 16, co-authored 28 publications. Previous affiliations of Swati Parekh include Ludwig Maximilian University of Munich & Loyola Marymount University.
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Papers
Comparative Analysis of Single-Cell RNA Sequencing Methods.
Christoph Ziegenhain,Beate Vieth,Swati Parekh,Björn Reinius,Amy Guillaumet-Adkins,Martha Smets,Heinrich Leonhardt,Holger Heyn,Ines Hellmann,Wolfgang Enard +9 more
TL;DR: Power simulations at different sequencing depths showed that Drop-seq is more cost-efficient for transcriptome quantification of large numbers of cells, while MARS-seq, SCRB- sequencing, and Smart-seq2 are more efficient when analyzing fewer cells.
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Benchmarking Single-Cell RNA Sequencing Protocols for Cell Atlas Projects
Elisabetta Mereu,Atefeh Lafzi,Catia Moutinho,Christoph Ziegenhain,Davis J. McCarthy,Davis J. McCarthy,Adrián Álvarez-Varela,Eduard Batlle,Sagar,Dominic Grün,Julia K. Lau,Stéphane C. Boutet,Chad Sanada,Aik Ooi,Robert C. Jones,Kelly Kaihara,Chris Brampton,Yasha Talaga,Yohei Sasagawa,Kaori Tanaka,Tetsutaro Hayashi,Caroline Braeuning,Cornelius Fischer,Sascha Sauer,Timo Trefzer,Christian Conrad,Xian Adiconis,Lan T. Nguyen,Aviv Regev,Aviv Regev,Aviv Regev,Joshua Z. Levin,Swati Parekh,Aleksandar Janjic,Lucas E. Wange,Johannes W. Bagnoli,Wolfgang Enard,Marta Gut,Rickard Sandberg,Itoshi Nikaido,Ivo Gut,Oliver Stegle,Oliver Stegle,Holger Heyn +43 more
TL;DR: In this paper, a multicenter study comparing 13 commonly used scRNA-seq and single-nucleus RNA-seq protocols applied to a heterogeneous reference sample resource was conducted.
Evolutionary routes and KRAS dosage define pancreatic cancer phenotypes
Sebastian Mueller,Thomas Engleitner,Thomas Engleitner,Roman Maresch,Roman Maresch,Magdalena Zukowska,Sebastian Lange,Thorsten Kaltenbacher,Thorsten Kaltenbacher,Björn Konukiewitz,Rupert Öllinger,Maximilian Zwiebel,Alex Strong,Hsi-Yu Yen,Hsi-Yu Yen,Ruby Banerjee,Sandra Louzada,Beiyuan Fu,Barbara Seidler,Juliana Götzfried,Kathleen Schuck,Zonera Hassan,Andreas Arbeiter,Nina Schönhuber,Sabine Klein,Christian Veltkamp,Mathias J Friedrich,Lena Rad,Maxim Barenboim,Maxim Barenboim,Christoph Ziegenhain,Julia Hess,Oliver M. Dovey,Stefan Eser,Swati Parekh,Fernando Constantino-Casas,Jorge de la Rosa,Jorge de la Rosa,Marta I. Sierra,Mario F. Fraga,Julia Mayerle,Günter Klöppel,Juan Cadiñanos,Pentao Liu,George S. Vassiliou,Wilko Weichert,Wilko Weichert,Katja Steiger,Wolfgang Enard,Roland M. Schmid,Roland M. Schmid,Fengtang Yang,Kristian Unger,Günter Schneider,Günter Schneider,Ignacio Varela,Allan Bradley,Dieter Saur,Dieter Saur,Roland Rad,Roland Rad +60 more
TL;DR: It is shown that oncogenic dosage-variation has a critical role in PDAC biology and phenotypic diversification, and universal principles of Ras-driven oncogenesis that have potential relevance beyond pancreatic cancer are uncovered.
zUMIs - A fast and flexible pipeline to process RNA sequencing data with UMIs.
TL;DR: ZUMIs as mentioned in this paper is a pipeline that can handle both known and random BCs and also efficiently collapse UMIs, either just for exon mapping reads or for both exon and intron mapping reads.
Characterization of Rare, Dormant, and Therapy-Resistant Cells in Acute Lymphoblastic Leukemia
Sarah Ebinger,Erbey Ziya Özdemir,Christoph Ziegenhain,Sebastian Tiedt,Catarina Castro Alves,Michaela Grunert,Michael Dworzak,Christoph Lutz,Virginia Turati,Tariq Enver,Hans-Peter Horny,Karl Sotlar,Swati Parekh,Karsten Spiekermann,Wolfgang Hiddemann,Aloys Schepers,Bernhard Polzer,Stefan Kirsch,Martin Hoffmann,Bettina Knapp,Jan Hasenauer,Heike Pfeifer,Renate Panzer-Grümayer,Wolfgang Enard,Olivier Gires,Irmela Jeremias +25 more
TL;DR: It is suggested that ALL patients might profit from therapeutic strategies that release MRD cells from the niche, as resistant, dormant cells became sensitive to treatment and started proliferating when dissociated from the in vivo environment.
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