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: bioconductor: annotatr
https://packages.ecosyste.ms/registries/bioconductor.org/packages/annotatr
Annotation of Genomic Regions to Genomic Annotations
1 version
Latest release: 7 months ago
4 dependent packages
52,142 downloads total
Papers Mentioning annotatr 15
10.1016/j.immuni.2021.08.011
Adenosine-to-inosine editing of endogenous Z-form RNA by the deaminase ADAR1 prevents spontaneous MAVS-dependent type I interferon responsesCited by: 58
Author(s): Qingli Tang, Rachel E. Rigby, George R. Young, Astrid Korning Hvidt, Tanja Davis, Tiong Kit Tan, Anne Bridgeman, Alain Townsend, George Kassiotis, Jan Rehwinkel
Software Mentions: 6
Published: over 2 years ago
10.1002/ctm2.498
An epigenomic landscape of cervical intraepithelial neoplasia and cervical cancer using single‐base resolution methylome and hydroxymethylomeCited by: 6
Author(s): Yingxin Han, Liyan Ji, Yanfang Guan, Mengya Ma, Pansong Li, Yinge Xue, Yinxin Zhang, Wanqiu Huang, Yuhua Gong, Li Jiang, Xipeng Wang, Hong Xie, Boping Zhou, Jiayin Wang, Junwen Wang, Jinghua Han, Yuliang Deng, Xin Yi, Fei Gao, Jian Huang
Software Mentions: 5
Published: almost 3 years ago
10.1371/journal.ppat.1009346
Epigenomic characterization of latent HIV infection identifies latency regulating transcription factorsCited by: 27
Author(s): Stuart R. Jefferys, Samuel D. Burgos, Jackson J Peterson, Sara R. Selitsky, Anne-Marie W. Turner, Lindsey I. James, Yi-Hsuan Tsai, Alisha R. Coffey, David M. Margolis, Joel S. Parker, Edward P. Browne
Software Mentions: 5
Published: about 3 years ago
10.1371/journal.pone.0226575
Neuronal and glial DNA methylation and gene expression changes in early epileptogenesisCited by: 17
Author(s): Toni Berger, Magnus Dehli Vigeland, Hanne Sagsveen Hjorthaug, Lars Etholm, Cecilie G. Nome, Erik Taubøll, Kjell Heuser, Kaja Kristine Selmer
Software Mentions: 5
Published: over 4 years ago
10.3390/cells9061436
Sex Chromosomes and Sex Phenotype Contribute to Biased DNA Methylation in Mouse LiverCited by: 14
Author(s): Qinwei Kim-Wee Zhuang, José Héctor Gálvez, Qian Xiao, Najla AlOgayil, Jeffrey Hyacinthe, Teruko Taketo, Guillaume Bourque, Anna K. Naumova
Software Mentions: 5
Published: almost 4 years ago
10.3390/cancers12061618
Rare Tumor-Normal Matched Whole Exome Sequencing Identifies Novel Genomic Pathogenic Germline and Somatic AberrationsCited by: 1
Author(s): Ryan Sprissler, Bryce Perkins, Laurel Johnstone, Hani M. Babiker, Pavani Chalasani, Branden Lau, Michael F. Hammer, Daruka Mahadevan
Software Mentions: 4
Published: almost 4 years ago
10.1186/s13024-021-00450-7
Genome-wide histone acetylation analysis reveals altered transcriptional regulation in the Parkinson’s disease brainCited by: 37
Author(s): Lilah Toker, Gia Tuong Thi Tran, Janani Sundaresan, Ole‐Bjørn Tysnes, Guido Alves, Kristoffer Haugarvoll, Gonzalo S. Nido, Christian Dölle, Charalampos Tzoulis
Software Mentions: 4
Published: about 3 years ago
10.1126/sciadv.abf8660
FUS-ALS mutants alter FMRP phase separation equilibrium and impair protein translationCited by: 32
Author(s): Nicol Birsa, Agnieszka M Ule, Maria Giovanna Garone, Brian Tsang, Francesca Mattedi, P. Andrew Chong, Jack Humphrey, Seth Jarvis, Melis Pisiren, Oscar G. Wilkins, Micheal L Nosella, Anny Devoy, Cristian Bodo, Rafaela Fernandez de la Fuente, Elizabeth Fisher, Alessandro Rosa, Gabriella Viero, Julie D. Forman-Kay, Giampietro Schiavo, Pietro Fratta
Software Mentions: 4
Published: almost 3 years ago
10.1515/jib-2020-0031
Differentially methylated CpG sites associated with the high-risk group of prostate cancerCited by: 2
Author(s): Anastasiya A. Kobelyatskaya, Elena A. Pudova, Maria Fedorova, K. M. Nyushko, B. Ya. Alekseev, А. Д. Каприн, Д. Ю. Трофимов, Г. Т. Сухих, Anastasiya V. Snezhkina, George S. Krasnov, S. V. Razin, Anna V. Kudryavtseva
Software Mentions: 3
Published: over 3 years ago
10.1186/s13148-021-01040-6
Genome-wide analysis of DNA methylation in Hirschsprung enteric precursor cells: unraveling the epigenetic landscape of enteric nervous system developmentCited by: 1
Author(s): Leticia Villalba‐Benito, Daniel López-López, Ana Torroglosa, Carlos S. Casimiro-Soriguer, Berta Lasa, Raquel M. Fernández, María José Moya-Jiménez, Guillermo Antiñolo, Joaquín Dopazo, Salud Borrego
Software Mentions: 2
Published: about 3 years ago
10.1002/1878-0261.12833
5‐Hydroxymethylcytosine signature in circulating cell‐free DNA as a potential diagnostic factor for early‐stage colorectal cancer and precancerous adenomaCited by: 10
Author(s): Zewen Xiao, Wendy Wu, Chunlong Wu, Man Li, Fuming Sun, Zheng Lu, Gao-Jing Liu, Xiaoling Li, Zhiyuan Yun, Jingling Tang, Yang Yu, Sai Luo, Wenji Sun, Feng Xiao, Qian Cheng, Ting Xue, Shuangxiu Wu, Jing Tao
Software Mentions: 2
Published: over 3 years ago
10.1186/s13072-019-0304-7
Genome-wide allele-specific methylation is enriched at gene regulatory regions in a multi-generation pedigree from the Norfolk Island isolateCited by: 9
Author(s): Miles C. Benton, Rodney Arthur Lea, Donia Macartney-Coxson, Heidi G. Sutherland, Nicole White, Kerrie Mengersen, Larisa M. Haupt, Lyn R. Griffiths
Software Mentions: 2
Published: over 4 years ago
10.1074/jbc.RA119.010080
The role of the histone H3 variant CENPA in prostate cancerCited by: 42
Author(s): Anjan K. Saha, Rafael Contreras-Galindo, Yashar S. Niknafs, Matthew K. Iyer, Tingting Qin, Karthik Ramaswamy Padmanabhan, Javed Siddiqui, Monica Palande, Claire Wang, Brian Qian, Elizabeth Ward, Tara Tang, Scott A. Tomlins, Scott D. Gitlin, Maureen A. Sartor, Gilbert S. Omenn, Arul M. Chinnaiyan, David M. Markovitz
Software Mentions: 2
Published: almost 4 years ago
10.1186/s12859-017-1870-y
Usability of human Infinium MethylationEPIC BeadChip for mouse DNA methylation studiesCited by: 24
Author(s): Maria Needhamsen, Ewoud Ewing, Harald Lund, David Gomez-Cabrero, Robert A. Harris, Lara Kular, Maja Jagodic
Software Mentions: 1
Published: over 6 years ago
10.1186/s12864-020-07294-3
Hepatic transcriptome and DNA methylation patterns following perinatal and chronic BPS exposure in male miceCited by: 3
Author(s): Axelle Brulport, Daniel Vaiman, Elias Bou-Maroun, Marie‐Christine Chagnon, Ludovic Le Corre
Software Mentions: 1
Published: over 3 years ago