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: augustus
https://packages.ecosyste.ms/registries/pypi.org/packages/augustus
A small example package
1 version
Latest release: about 5 years ago
22 downloads last month
Papers Mentioning augustus 21
10.1111/1755-0998.13219
Genetic structure and insecticide resistance characteristics of fall armyworm populations invading ChinaCited by: 103
Author(s): Lei Zhang, Bo Liu, Wengang Zheng, Conghui Liu, Dandan Zhang, Shengyuan Zhao, Zaiyuan Li, Pengjun Xu, Kenneth Wilson, Amy Withers, Christopher M. Jones, Judith A. Smith, Gilson Chipabika, Donald L. Kachigamba, Kiwoong Nam, Emmanuelle d’Alençon, Bei Liu, Xinyue Liang, Minghui Jin, Chao Wu, Swapan Chakrabarty, Xinming Yang, Yuying Jiang, Jie Liu, Xiaolin Liu, Weipeng Quan, Guirong Wang, Wei Fan, Wanqiang Qian, Kongming Wu, Yutao Xiao
Software Mentions: 10
Published: over 4 years ago
10.1111/1755-0998.12443
The <i>de novo</i> genome assembly and annotation of a female domestic dromedary of North African originCited by: 56
Author(s): Robert R. Fitak, Elmira Mohandesan, Jukka Corander, Pamela A. Burger
Software Mentions: 9
Published: over 9 years ago
10.1111/mec.15648
Genomic signatures of convergent adaptation to Alpine environments in three Brassicaceae speciesCited by: 11
Author(s): Christian Rellstab, Stefan Zoller, Christian Sailer, Andrew Tedder, Félix Gugerli, Kentaro Shimizu, Rolf Holderegger, Alex Widmer, Martin C. Fischer
Software Mentions: 9
Published: about 4 years ago
10.1111/1755-0998.13266
Chromosome‐level genome assembly of <i>Paralithodes platypus</i> provides insights into evolution and adaptation of king crabsCited by: 11
Author(s): Boping Tang, Zhongkai Wang, Qiu-Ning Liu, Zhengfei Wang, Yandong Ren, Huayun Guo, Tingting Qi, Yue‐Tian Li, Huabin Zhang, Senhao Jiang, Baoming Ge, Fujun Xuan, Yue Sun, Shusheng She, Tin Yam Chan, Zhongli Sha, Hui Jiang, Haorong Li, Wei Jiang, Yanli Qin, Kun Wang, Qiang Qiu, Wen Wang, Xinzheng Li, Ngan Kee Ng, Dai-Zhen Zhang, Yongxin Li
Software Mentions: 9
Published: about 4 years ago
10.1111/1755-0998.13187
A de novo chromosome‐level genome assembly of<i>Coregonus</i>sp. “<i>Balchen</i>”: One representative of the Swiss Alpine whitefish radiationCited by: 25
Author(s): Rishi De‐Kayne, Stefan Zoller, Philine G. D. Feulner
Software Mentions: 8
Published: over 4 years ago
10.1099/mgen.0.000445
Transcriptome-wide expression profiling of Sporothrix schenckii yeast and mycelial forms and the establishment of the Sporothrix Genome DataBaseCited by: 12
Author(s): Domenico Giosa, Maria Rosa Felice, Letterio Giuffrè, Riccardo Aiese Cigliano, Andreu Paytuví-Gallart, Carla Lo Passo, Cinzia Barresi, Enrico D’Alessandro, Huaiqiu Huang, Giuseppe Criseo, Héctor M. Mora-Montes, Sybren de Hoog, Orazio Romeo
Software Mentions: 7
Published: about 4 years ago
10.1111/1755-0998.13252
Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird‐of‐paradiseCited by: 84
Author(s): Valentina Peona, Mozes P. K. Blom, Luohao Xu, Reto Burri, Shawn Sullivan, Ignas Bunikis, Ivan Liachko, Tri Haryoko, Knud A. Jønsson, Qi Zhou, Martin Irestedt, Alexander Suh
Software Mentions: 6
Published: about 4 years ago
10.1099/mgen.0.000333
Genome structure reveals the diversity of mating mechanisms in Saccharomyces cerevisiae x Saccharomyces kudriavzevii hybrids, and the genomic instability that promotes phenotypic diversityCited by: 13
Author(s): Miguel Morard, Yaiza Benavent‐Gil, Guadalupe Ortiz-Tovar, Laura Pérez‐Través, Amparo Querol, Christina Toft, Eladio Barrio
Software Mentions: 5
Published: over 4 years ago
10.1111/1755-0998.13020
Improving Illumina assemblies with Hi‐C and long reads: An example with the North African dromedaryCited by: 36
Author(s): Jean P. Elbers, Mark F. Rogers, Polina L. Perelman, Anastasia A. Proskuryakova, Natalia A. Serdyukova, Warren E. Johnson, Petr Hořín, Jukka Corander, David Murphy, Pamela A. Burger
Software Mentions: 5
Published: over 5 years ago
10.1111/1755-0998.12939
Finding Nemo’s Genes: A chromosome‐scale reference assembly of the genome of the orange clownfish <i>Amphiprion percula</i>Cited by: 42
Author(s): Robert Lehmann, Damien J. Lightfoot, Celia Schunter, Craig Michell, Hajime Ohyanagi, Katsuhiko Mineta, Sylvain Forêt, Michael L. Berumen, David J. Miller, Manuel Aranda, Takashi Gojobori, Philip L. Munday, Timothy Ravasi
Software Mentions: 5
Published: about 6 years ago
10.7554/eLife.12081
The genetic basis for ecological adaptation of the Atlantic herring revealed by genome sequencingCited by: 141
Author(s): Álvaro Martínez Barrio, Sangeet Lamichhaney, Guangyi Fan, Nima Rafati, Mats E. Pettersson, He Zhang, Jacques Dainat, Diana Ekman, Marc P. Höppner, Patric Jern, Marcel Martin, Björn Nystedt, Xin Liu, Wenbin Chen, Xinming Liang, Chengcheng Shi, Yuanyuan Fu, Kailong Ma, Xiaowei Zhan, Chungang Feng, Ulla Gustafson, Carl-Johan Rubin, Markus Sällman Almén, Martina Blass, Michèle Casini, Arild Folkvord, Linda Laikre, Nils Ryman, Simon Ming‐Yuen Lee, Xun Xu, Leif Andersson
Software Mentions: 4
Published: over 8 years ago
10.1186/s12864-016-2928-3
The genome of the emerging barley pathogen Ramularia collo-cygniCited by: 29
Author(s): Graham R. D. McGrann, Ambrose Andongabo, Elisabet Sjökvist, Urmi Trivedi, Francois Dussart, Maciej Kaczmarek, Ashleigh Mackenzie, J. M. Fountaine, Jeanette Taylor, Lindsay Paterson, K. Gorniak, F. J. Burnett, K. Kanyuka, K. E. Hammond‐Kosack, J. J. Rudd, Mark Blaxter, Neil D. Havis
Software Mentions: 4
Published: over 8 years ago
10.1371/journal.pbio.2003583
Drivers of genetic diversity in secondary metabolic gene clusters within a fungal speciesCited by: 146
Author(s): Abigail Lind, Jennifer H. Wisecaver, Catarina Lameiras, Philipp Wiemann, Jonathan M. Palmer, Nancy P. Keller, Fernando Rodrigues, Gustavo H. Goldman, Antonis Rokas
Software Mentions: 4
Published: about 7 years ago
10.3389/fmicb.2018.00593
Genome Sequence, Assembly and Characterization of Two Metschnikowia fructicola Strains Used as Biocontrol Agents of Postharvest DiseasesCited by: 51
Author(s): Edoardo Piombo, Noa Sela, Michael Wisniewski, Maria Hoffmann, M. L. Gullino, Marc W. Allard, E.J. Levin, D. Spadaro, Samir Droby
Software Mentions: 4
Published: over 6 years ago
10.3389/fmicb.2020.01807
Sequencing the Genome of Indian Flying Fox, Natural Reservoir of Nipah Virus, Using Hybrid Assembly and Conservative Secondary ScaffoldingCited by: 2
Author(s): Julien Fouret, Frédéric Brunet, Martin Binet, Noémie Aurine, François Enchéry, Séverine Croze, Marie Guinier, Abdelghafar Goumaidi, Doris Preininger, Jean‐Nicolas Volff, Marc Bailly‐Bechet, Joël Lachuer, Branka Horvat, Catherine Legras-Lachuer
Software Mentions: 2
Published: over 4 years ago
10.1111/acel.12283
Gene expression defines natural changes in mammalian lifespanCited by: 134
Author(s): Alexey A. Fushan, Anton A. Turanov, Sang Goo Lee, Eun Bae Kim, Alexei V. Lobanov, Sun Hee Yim, Rochelle Buffenstein, Sang Rae Lee, Kyu Tae Chang, Hwanseok Rhee, Jong So Kim, Kap Seok Yang, Vadim N. Gladyshev
Software Mentions: 2
Published: almost 10 years ago
10.1111/tpj.14954
The <i>Acer truncatum</i> genome provides insights into nervonic acid biosynthesisCited by: 46
Author(s): Qiuyue Ma, Tsieh Sun, Shushun Li, Jing Wen, Li Zhu, Tongming Yin, Kunyuan Yan, Xiao Xu, Shuxian Li, Jian‐Feng Mao, Yanan Wang, Shuangxia Jin, Xing Zhao, Qian‐Zhong Li
Software Mentions: 2
Published: about 4 years ago
10.1093/database/bax032
Improved annotation of the insect vector of citrus greening disease: biocuration by a diverse genomics communityCited by: 59
Author(s): Surya Saha, Prashant S. Hosmani, Krystal Villalobos-Ayala, Sherry Miller, Teresa D. Shippy, Mirella Flores, Andrew J. Rosendale, Chris Cordola, Tracey Bell, Hannah Mann, Gabe DeAvila, Daniel DeAvila, Zachary Moore, Kyle Buller, Kathryn Ciolkevich, Samantha Nandyal, Robert Mahoney, Joshua Van Voorhis, Megan E. Dunlevy, David Farrow, David Hunter, Taylar Morgan, Kayla Shore, Victoria Guzman, Allison Izsak, Danielle E. Dixon, Andrew G. Cridge, Liliana Cano, Xiaolong Cao, Haobo Jiang, Nan Li, Shannon L. Johnson, Brandi L. Cantarel, Stephen Richards, Adam C. English, Robert G. Shatters, Christopher P. Childers, Mei-Ju Chen, Wayne B. Hunter, Michelle Cilia, Lukas A. Mueller, Monica Munoz‐Torres, David R. Nelson, Monica Poelchau, Joshua B. Benoit, Helen Wiersma-Koch, Tom D’Elia, Susan J. Brown
Software Mentions: 2
Published: almost 8 years ago
10.1038/s41598-020-79358-z
An ultra-high density SNP-based linkage map for enhancing the pikeperch (Sander lucioperca) genome assembly to chromosome-scaleCited by: 5
Author(s): Lidia de los Ríos-Pérez, Julien Alban Nguinkal, Marieke Verleih, Alexander Rebl, Ronald M. Brunner, Jan Klosa, Nadine Schäfer, Marcus Stüeken, Tom Goldammer, Dörte Wittenburg
Software Mentions: 2
Published: almost 4 years ago
10.1371/journal.pone.0127789
Pathways of Amino Acid Degradation in Nilaparvata lugens (Stål) with Special Reference to Lysine-Ketoglutarate Reductase/Saccharopine Dehydrogenase (LKR/SDH)Cited by: 15
Author(s): Pin-Jun Wan, San-Yue Yuan, Yonghui Tang, Kailong Li, Lu Yang, Qiang Fu, Guoqing Li
Software Mentions: 1
Published: over 9 years ago
10.1186/1471-2105-7-62
Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sourcesCited by: 899
Author(s): Mario Stanke, Oliver Schöffmann, Burkhard Morgenstern, Stephan Waack
Software Mentions: 1
Published: almost 19 years ago