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: TEtranscripts
https://packages.ecosyste.ms/registries/pypi.org/packages/TEtranscripts
Tools for estimating differential enrichment of Transposable Elements and other highly repetitive regions
11 versions
Latest release: about 2 years ago
68 downloads last month
Papers Mentioning TEtranscripts 14
10.15252/embj.2020106423
Activation of endogenous retroviruses during brain development causes an inflammatory responseCited by: 27
Author(s): Marie E. Jönsson, Raquel Garza, Yogita Sharma, Rebecca Petri, Erik Södersten, Jenny Johansson, Peter Johansson, Diahann A. M. Atacho, Karolina Pircs, Sofia Madsen, David Yudovich, Ramprasad Ramakrishnan, Johan Holmberg, Jonas Larsson, Patric Jern, Johan Jakobsson
Software Mentions: 8
Published: over 3 years ago
10.3389/fcimb.2021.609160
Exogenous Coronavirus Interacts With Endogenous Retrotransposon in Human CellsCited by: 27
Author(s): Ying Yin, Xiaozhao Liu, Ximiao He, Li-Quan Zhou
Software Mentions: 6
Published: over 3 years ago
10.1186/s13100-019-0180-5
Transcriptome analyses of tumor-adjacent somatic tissues reveal genes co-expressed with transposable elementsCited by: 20
Author(s): Nicky Chung, G. M. Jonaid, Sophia Quinton, Austin Ross, Corinne E. Sexton, Adrian Alberto, Cody Clymer, Daphnie Churchill, Omar Navarro Leija, Mira V. Han
Software Mentions: 6
Published: about 5 years ago
10.1186/s13100-018-0138-z
Properties of LINE-1 proteins and repeat element expression in the context of amyotrophic lateral sclerosisCited by: 33
Author(s): Gavin Pereira, Laura Sánchez, Paul Schaughency, Alejandro Rubio-Roldán, Justin Choi, Evarist Planet, Ranjan Batra, Priscilla Turelli, Didier Trono, Lyle W. Ostrow, John Ravits, Haig H. Kazazian, Sarah J. Wheelan, Sara R. Heras, Jens Mayer, José L. García‐Pérez, John Goodier
Software Mentions: 5
Published: almost 6 years ago
10.1371/journal.pcbi.1006453
Telescope: Characterization of the retrotranscriptome by accurate estimation of transposable element expressionCited by: 81
Author(s): Matthew L. Bendall, Miguel de Mulder, Luis P. Íñiguez, Aarón Lecanda, Marcos Pérez‐Losada, Mario Ostrowski, R. Brad Jones, Lubbertus C. F. Mulder, Gustavo Reyes‐Terán, Keith A. Crandall, Christopher E. Ormsby, Douglas F. Nixon
Software Mentions: 4
Published: about 5 years ago
10.1038/s42003-021-02089-y
Regulation of mammalian 3D genome organization and histone H3K9 dimethylation by H3K9 methyltransferasesCited by: 10
Author(s): Kei Fukuda, Chikako Shimura, Hisashi Miura, Akie Tanigawa, Takehiro Suzuki, Naoshi Dohmae, Ichiro Hiratani, Yoichi Shinkai
Software Mentions: 4
Published: over 3 years ago
10.1186/s13072-020-00374-4
The fibronectin type-III (FNIII) domain of ATF7IP contributes to efficient transcriptional silencing mediated by the SETDB1 complexCited by: 12
Author(s): Takeshi Tsusaka, Kei Fukuda, Chikako Shimura, Masaki Kato, Yoichi Shinkai
Software Mentions: 3
Published: almost 4 years ago
10.1111/acel.13348
NELF‐A controls <i>Drosophila</i> healthspan by regulating heat‐shock protein‐mediated cellular protection and heterochromatin maintenanceCited by: 5
Author(s): Zhen‐Kai Ngian, Wei‐Qi Lin, Chin‐Tong Ong
Software Mentions: 3
Published: over 3 years ago
10.1371/journal.pgen.1008648
A kinesin Klp10A mediates cell cycle-dependent shuttling of Piwi between nucleus and nuageCited by: 3
Author(s): Zsolt Venkei, Charlotte P Choi, Suhua Feng, Cuie Chen, Steven E. Jacobsen, John K. Kim, Yukiko Yamashita
Software Mentions: 3
Published: over 4 years ago
10.1111/acel.13167
Repetitive elements as a transcriptomic marker of aging: Evidence in multiple datasets and modelsCited by: 32
Author(s): Thomas J LaRocca, Alyssa N. Cavalier, Devin Wahl
Software Mentions: 2
Published: over 4 years ago
10.1186/s12864-017-3898-9
Predicting RNA hyper-editing with a novel tool when unambiguous alignment is impossibleCited by: 1
Author(s): Wilson McKerrow, Yiannis A. Savva, Ali Rezaei, Robert A. Reenan, Charles E. Lawrence
Software Mentions: 2
Published: over 7 years ago
10.1371/journal.pgen.1006635
Retrotransposon activation contributes to neurodegeneration in a Drosophila TDP-43 model of ALSCited by: 146
Author(s): Lisa Krug, Nabanita Chatterjee, Rebeca Borges-Monroy, Stephen Hearn, Wen‐Wei Liao, Kathleen M. Morrill, Lisa Prazak, Nikolay V. Rozhkov, Delphine Theodorou, Molly Gale Hammell, Josh Dubnau
Software Mentions: 2
Published: over 7 years ago
10.3389/fmolb.2016.00076
Patterns of Transposable Element Expression and Insertion in CancerCited by: 21
Author(s): Evan Clayton, Lu Wang, Lavanya Rishishwar, Jianrong Wang, John F. McDonald, I. King Jordan
Software Mentions: 1
Published: about 8 years ago
10.1038/s41597-021-00968-x
A comprehensive annotation dataset of intact LTR retrotransposons of 300 plant genomesCited by: 14
Author(s): Shanshan Zhou, Xuemei Yan, Kaifu Zhang, Hui Liu, Jie Xu, Shuai Nie, Kai‐Hua Jia, Si-Qian Jiao, Zhao Wang, Yanjie Zhao, Ilga Porth, Yousry A. El Kassaby, Jian‐Feng Mao
Software Mentions: 1
Published: over 3 years ago