Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: pypi: Loupe
https://packages.ecosyste.ms/registries/pypi.org/packages/Loupe
A Python library for solving parametric optimization problems with built-in autograd.
3 versions
Latest release: almost 2 years ago
11 downloads last month
Papers Mentioning Loupe 17
10.3390/cancers13061212
Comparison of Structural and Short Variants Detected by Linked-Read and Whole-Exome Sequencing in Multiple MyelomaCited by: 3
Author(s): Ashwini Kumar, Sadiksha Adhikari, Matti Kankainen, Caroline A. Heckman
Software Mentions: 8
Published: over 3 years ago
10.1038/s10038-019-0687-0
Visualization tools for human structural variations identified by whole-genome sequencingCited by: 8
Author(s): Toshiyuki Yokoyama, Masahiro Kasahara
Software Mentions: 7
Published: almost 5 years ago
10.1186/s13059-019-1816-y
Birth, expansion, and death of VCY-containing palindromes on the human Y chromosomeCited by: 8
Author(s): Wentao Shi, Andrea Massaia, Sandra Louzada, Juliet Handsaker, William Chow, Shane McCarthy, Joanna Collins, Pille Hallast, Kerstin Howe, Deanna M. Church, Fengtang Yang, Yali Xue, Chris Tyler‐Smith
Software Mentions: 2
Published: almost 5 years ago
10.1161/CIRCULATIONAHA.119.043724
Systems Approach to Discovery of Therapeutic Targets for Vein Graft Disease: PPARα Pivotally Regulates Metabolism, Activation, and Heterogeneity of Macrophages and Lesion DevelopmentCited by: 17
Author(s): Julius L. Decano, Sasha A Singh, Cauê Gasparotto Bueno, Lang Ho Lee, Arda Halu, Sarvesh Chelvanambi, Joan T. Matamalas, Hengmin Zhang, Andrew K. Mlynarchik, Jiao Qiao, Amitabh Sharma, Sonoyo Mukai, Jianguo Wang, Daniel G. Anderson, C. Keith Ozaki, Peter Libby, Elena Aïkawa, Masanori Aikawa
Software Mentions: 2
Published: over 3 years ago
10.1038/s41598-020-76458-8
Fate and functional roles of Prominin 1+ cells in liver injury and cancerCited by: 7
Author(s): Runpei Wu, Stephanie Pan, Yibu Chen, Yasuhiro Nakano, Meng Li, Steven Balog, Hidekazu Tsukamoto
Software Mentions: 2
Published: almost 4 years ago
10.1530/EJE-20-1387
Kallmann syndrome in a patient with Weiss–Kruszka syndrome and a de novo deletion in 9q31.2Cited by: 8
Author(s): Anna-Pauliina Iivonen, Juho Kärkinen, Venkatram Yellapragada, Virpi Sidoroff, Henrikki Almusa, Kirsi Vaaralahti, Taneli Raivio
Software Mentions: 2
Published: over 3 years ago
10.1186/s12920-019-0526-3
Transient multifocal genomic crisis creating chromothriptic and non-chromothriptic rearrangements in prezygotic testicular germ cellsCited by: 8
Author(s): Atsushi Hattori, Koji Okamura, Yasuhiko Terada, Rika Tanaka, Yuko Katoh‐Fukui, Yoichi Matsubara, Kazuo Matsubara, Masayo Kagami, Reiko Horikawa, Maki Fukami
Software Mentions: 2
Published: over 5 years ago
10.1186/s12885-021-08370-x
Genetic analysis of sinonasal undifferentiated carcinoma discovers recurrent SWI/SNF alterations and a novel PGAP3-SRPK1 fusion geneCited by: 6
Author(s): Molly Heft Neal, Andrew C. Birkeland, Apurva Bhangale, Jingyi Zhai, Aditi Kulkarni, Susan K. Foltin, Brittany M. Jewell, Megan Ludwig, Lisa M. Pinatti, Hui Jiang, Jonathan B. McHugh, Lawence Marentette, Erin L. McKean, J. Chad Brenner
Software Mentions: 2
Published: over 3 years ago
10.1038/s41419-021-03795-5
p63 suppresses the ability of pregnancy-identified mammary epithelial cells (PIMECs) to drive HER2-positive breast cancerCited by: 4
Author(s): Christopher Eyermann, Jinyu Li, Evguenia M. Alexandrova
Software Mentions: 2
Published: over 3 years ago
10.3389/fcell.2020.00379
Spatiotemporal Characterization of Anterior Segment Mesenchyme Heterogeneity During Zebrafish Ocular Anterior Segment DevelopmentCited by: 10
Author(s): Kristyn L. Van Der Meulen, Oliver Vöcking, Megan Weaver, Nishita Meshram, Jakub K. Famulski
Software Mentions: 1
Published: over 4 years ago
10.1186/s12881-020-01033-x
Ancestry and frequency of genetic variants in the general population are confounders in the characterization of germline variants linked to cancerCited by: 4
Author(s): Anna Bobyn, Mehdi Zarrei, Yuankun Zhu, Mary Hoffman, Darren R. Brenner, Adam Resnick, Stephen W. Scherer, Marco Gallo
Software Mentions: 1
Published: over 4 years ago
10.1007/s00401-018-1912-1
Structure and evolution of double minutes in diagnosis and relapse brain tumorsCited by: 54
Author(s): Ke Xu, Liang Ding, Ti-Cheng Chang, Ying Shao, Jason Chiang, Heather L. Mulder, Shuoguo Wang, Timothy I. Shaw, Ji Wen, Laura D. Hover, Clay McLeod, Yongdong Wang, John Easton, Michael Rusch, James Dalton, James R. Downing, David W. Ellison, Jinghui Zhang, Suzanne J. Baker, Gang Wu
Software Mentions: 1
Published: about 6 years ago
10.3389/fphar.2020.00486
Long-Distance Phasing of a Tentative “Enhancer” Single-Nucleotide Polymorphism With CYP2D6 Star Allele DefinitionsCited by: 10
Author(s): Erin C. Boone, Wendy Y. Wang, Roger Gaedigk, Mariana Cherner, Aurélie Bérard, J. Steven Leeder, Neil Miller, Andrea Gaedigk
Software Mentions: 1
Published: over 4 years ago
10.3390/genes12020133
Linked-Read Whole Genome Sequencing Solves a Double DMD Gene RearrangementCited by: 4
Author(s): Maria Elena Onore, Annalaura Torella, Francesco Musacchia, Paola D’Ambrosio, Mariateresa Zanobio, Francesca Del Vecchio Blanco, Giulio Piluso, Vincenzo Nigro
Software Mentions: 1
Published: over 3 years ago
10.1186/s13059-017-1158-6
Defining the diverse spectrum of inversions, complex structural variation, and chromothripsis in the morbid human genomeCited by: 149
Author(s): Ryan L. Collins, Harrison Brand, Claire Redin, Carrie Hanscom, Caroline Antolik, Matthew R. Stone, Joseph T. Glessner, Tamara Mason, Giulia Pregno, Naghmeh Dorrani, Giorgia Mandrile, Daniela Giachino, Danielle Perrin, Cole Walsh, Michelle Cipicchio, Maura Costello, Alexei Stortchevoi, Joon Yong An, Benjamin Currall, Catarina M. Seabra, Ashok Ragavendran, Lauren Margolin, Julián A. Martínez-Agosto, Diane Lucente, Brynn Levy, Stephan Sanders, Ronald J. Wapner, Fabiola Quintero‐Rivera, Wigard P. Kloosterman, Michael E. Talkowski
Software Mentions: 1
Published: over 7 years ago
10.1186/s13073-017-0467-4
A practical guide to single-cell RNA-sequencing for biomedical research and clinical applicationsCited by: 596
Author(s): Ashraful Haque, Jessica A. Engel, Sarah A. Teichmann, Tapio Lönnberg
Software Mentions: 1
Published: about 7 years ago
10.1186/s40246-019-0204-8
Studies of liver tissue identify functional gene regulatory elements associated to gene expression, type 2 diabetes, and other metabolic diseasesCited by: 4
Author(s): Marco Cavalli, Nicholas Baltzer, Gang Pan, José Ramón Bárcenas Walls, Karolina Smolinska Garbulowska, Chanchal Kumar, Stanko Skrtic, Jan Komorowski, Claes Wadelius
Software Mentions: 1
Published: over 5 years ago