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: Mikado

https://packages.ecosyste.ms/registries/pypi.org/packages/Mikado

A Python3 annotation program to select the best gene model in each locus
28 versions
Latest release: over 1 year ago
118 downloads last month

Papers Mentioning Mikado 14

Building a locally diploid genome and transcriptome of the diatom Fragilariopsis cylindrus
Cited by: 12
Author(s): Pirita Paajanen, Jan Strauss, Cock van Oosterhout, Mark McMullan, Matt Clark, Thomas Möck
Software Mentions: 7
Published: about 7 years ago

10.1093/gigascience/giy093

Leveraging multiple transcriptome assembly methods for improved gene structure annotation
Cited by: 110
Author(s): Luca Venturini, Shabhonam Caim, Gemy Kaithakottil, Daniel Mapleson, David Swarbreck
Software Mentions: 7
Published: over 6 years ago

10.7554/eLife.51712

Independent evolution of ancestral and novel defenses in a genus of toxic plants (Erysimum, Brassicaceae)
Cited by: 41
Author(s): Tobias Züst, Susan R. Strickler, Adrian F. Powell, Makenzie E. Mabry, Hong An, Mohammad Mirzaei, A. York, Cynthia K. Holland, Pavan Kumar, Matthias Erb, Georg Petschenka, José-María Gómez, Francisco Perfectti, Caroline Müller, J. Chris Pires, Lukas A. Mueller, Georg Jander
Software Mentions: 7
Published: over 4 years ago

10.3389/fpls.2020.619404

Barley Anther and Meiocyte Transcriptome Dynamics in Meiotic Prophase I
Cited by: 18
Author(s): Abdellah Barakate, Jamie Orr, Miriam Schreiber, Isabelle Colas, Dominika Lewandowska, Nicola McCallum, Malcolm Macaulay, Jenny Morris, Mikel Arrieta, Pete E. Hedley, Luke Ramsay, Robbie Waugh
Software Mentions: 7
Published: almost 4 years ago

10.1534/g3.120.401050

The <i>Gossypium longicalyx</i> Genome as a Resource for Cotton Breeding and Evolution
Cited by: 29
Author(s): Corrinne E. Grover, Mengqiao Pan, Daojun Yuan, Mark A. Arick, Guanjing Hu, Logan Brase, David M. Stelly, Zefu Lu, Robert J. Schmitz, Daniel G. Peterson, Jonathan F. Wendel, Joshua A. Udall
Software Mentions: 6
Published: over 4 years ago

10.1371/journal.pone.0249899

A pseudomolecule assembly of the Rocky Mountain elk genome
Cited by: 2
Author(s): Rick E. Masonbrink, David P. Alt, Darrell O. Bayles, Paola M. Boggiatto, William H. Edwards, Fred M. Tatum, Jeffrey T. Williams, Jennifer H. Wilson-Welder, Aleksey V. Zimin, Andrew J. Severin, Steven C. Olsen
Software Mentions: 5
Published: over 3 years ago

10.1186/s13059-020-02029-9

Gapless assembly of maize chromosomes using long-read technologies
Cited by: 87
Author(s): Jianing Liu, Arun S. Seetharam, Kapeel Chougule, Shujun Ou, Kyle W. Swentowsky, Jonathan I. Gent, Víctor Llaca, Margaret R. Woodhouse, Nancy Manchanda, Gernot G. Presting, David Kudrna, Magdy S. Alabady, Candice N. Hirsch, Kevin Fengler, Doreen Ware, Todd P. Michael, Matthew B. Hufford, R. Kelly Dawe
Software Mentions: 4
Published: over 4 years ago

10.1007/s00122-019-03517-8

Genetic analysis of wheat sensitivity to the ToxB fungal effector from Pyrenophora tritici-repentis, the causal agent of tan spot
Cited by: 22
Author(s): Beatrice Corsi, Lawrence Percival‐Alwyn, Rowena Downie, Luca Venturini, Elyce M. Iagallo, Camila Campos Mantello, Charlie McCormick-Barnes, Pao Theen See, Richard P. Oliver, Caroline S. Moffat, James Cockram
Software Mentions: 3
Published: almost 5 years ago

10.1186/1471-2148-7-166

Evolutionary conservation of P-selectin glycoprotein ligand-1 primary structure and function
Cited by: 31
Author(s): Bénédicte Baïsse, Frédérique Galisson, Sylvain Giraud, Marc Schapira, Olivier Spertini
Software Mentions: 2
Published: about 17 years ago

10.3389/fpls.2021.629859

The Genome of Banana Leaf Blight Pathogen Fusarium sacchari str. FS66 Harbors Widespread Gene Transfer From Fusarium oxysporum
Cited by: 3
Author(s): Yiping Cui, Bo Wu, Aitian Peng, Xiaobing Song, Xia Chen
Software Mentions: 2
Published: almost 4 years ago

10.7554/eLife.42530

Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation
Cited by: 51
Author(s): Shengbo He, Martin Vickers, Jingyi Zhang, Xiaoqi Feng
Software Mentions: 2
Published: over 5 years ago

10.1534/g3.120.401440

Draft Genome of the Common Snapping Turtle, <i>Chelydra serpentina</i>, a Model for Phenotypic Plasticity in Reptiles
Cited by: 8
Author(s): Debojyoti Das, Sunil Kumar Singh, Jacob Bierstedt, A. E. Erickson, Gina L. J. Galli, Dane A. Crossley, Turk Rhen
Software Mentions: 1
Published: almost 4 years ago

10.3390/cancers11091253

Acute Myeloid and Lymphoblastic Leukemia Cell Interactions with Endothelial Selectins: Critical Role of PSGL-1, CD44 and CD43
Cited by: 20
Author(s): Caroline Spertini, Bénédicte Baïsse, Marta Bellone, Milica Gikic, Т. А. Смирнова, Olivier Spertini
Software Mentions: 1
Published: about 5 years ago

10.3390/genes9100485

“Out of the Can”: A Draft Genome Assembly, Liver Transcriptome, and Nutrigenomics of the European Sardine, Sardina pilchardus
Cited by: 28
Author(s): André M. Machado, Ole K. Tørresen, Naoki Kabeya, Alvarina Couto, Bent Petersen, Mónica Felício, Paula F. Campos, Elza Fonseca, Narcisa M. Bandarra, Mónica Lopes-Marques, Renato Ferraz, Raquel Ruivo, Miguel M. Fonseca, Sissel Jentoft, Óscar Monroig, Rute R. da Fonseca, L. Filipe C. Castro
Software Mentions: 1
Published: about 6 years ago