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: genomation
https://packages.ecosyste.ms/registries/bioconductor.org/packages/genomation
Summary, annotation and visualization of genomic data
1 version
Latest release: 12 months ago
5 dependent packages
70,093 downloads total
Papers Mentioning genomation 17
10.1126/sciadv.aaz1138
Two different epigenetic information channels in wild three-spined sticklebacks are involved in salinity adaptationCited by: 76
Author(s): Melanie J. Heckwolf, Britta Meyer, Robert Häsler, Marc P. Höppner, Christophe Eizaguirre, Thorsten B. H. Reusch
Software Mentions: 9
Published: over 4 years ago
10.1038/s41598-021-98889-7
Productive visualization of high-throughput sequencing data using the SeqCode open portable platformCited by: 7
Author(s): Enrique Blanco, Mar González-Ramírez, Luciano Di Croce
Software Mentions: 8
Published: about 3 years ago
10.7717/peerj.11983
Identifying transcript 5′ capped ends in <i>Plasmodium falciparum</i>Cited by: 2
Author(s): Philip Shaw, Jittima Piriyapongsa, Pavita Kaewprommal, Chayaphat Wongsombat, Chadapohn Chaosrikul, Krirkwit Teeravajanadet, Manon Boonbangyang, Chairat Uthaipibull, Sumalee Kamchonwongpaisan, Sissades Tongsima
Software Mentions: 8
Published: about 3 years ago
10.1038/s42003-021-01990-w
Multi-omics phenotyping of the gut-liver axis reveals metabolic perturbations from a low-dose pesticide mixture in ratsCited by: 26
Author(s): Robin Mesnage, Maxime Teixeira, Daniele Mandrioli, Laura Falcioni, Mariam Ibragim, Quinten R Ducarmon, Romy D. Zwittink, Caroline Amiel, Jean-Michel Panoff, Emma Bourne, Emanuel Savage, Charles A. Mein, Fiorella Belpoggi, Michael Antoniou
Software Mentions: 7
Published: over 3 years ago
10.1371/journal.pntd.0008262
Global changes in nitration levels and DNA binding profile of Trypanosoma cruzi histones induced by incubation with host extracellular matrixCited by: 5
Author(s): Rubens Daniel Miserani Magalhães, Eliciane Cevolani Mattos, Andrei Rozanski, Pedro A. F. Galante, Giuseppe Palmisano, Ângela K. Cruz, Walter Colli, Anamaria A. Camargo, Maria Júlia M. Alves
Software Mentions: 7
Published: over 4 years ago
10.1016/j.devcel.2021.02.007
Germ cell differentiation requires Tdrd7-dependent chromatin and transcriptome reprogramming marked by germ plasm relocalizationCited by: 15
Author(s): Fabio M D'Orazio, Piotr J. Balwierz, Ada Jimenez González, Yixuan Guo, Benjamín Hernández-Rodríguez, Lucy Wheatley, Aleksandra Jasiulewicz, Yavor Hadzhiev, Juan M. Vaquerizas, Bradley R. Cairns, Boris Lenhard, Ferenc Müller
Software Mentions: 6
Published: over 3 years ago
10.1186/s13072-018-0205-1
Consistent inverse correlation between DNA methylation of the first intron and gene expression across tissues and speciesCited by: 243
Author(s): Dafni Anastasiadi, Anna Esteve‐Codina, Francesc Piferrer
Software Mentions: 6
Published: over 6 years ago
10.1093/gigascience/giz030
Chromosome-scale assemblies reveal the structural evolution of African cichlid genomesCited by: 73
Author(s): Matthew A. Conte, Rajesh Joshi, Emily C. Moore, Sri Pratima Nandamuri, William J Gammerdinger, Reade B. Roberts, Karen L. Carleton, Sigbjørn Lien, Thomas D. Kocher
Software Mentions: 6
Published: over 5 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: over 3 years ago
10.1371/journal.pone.0220934
Profiling DNA methylation patterns of zebrafish liver associated with parental high dietary arachidonic acidCited by: 18
Author(s): Anne‐Catrin Adam, Kai Kristoffer Lie, Paul Whatmore, Lars Martin Jakt, Mari Moren, Kaja H. Skjærven
Software Mentions: 5
Published: about 5 years ago
10.3389/fgene.2019.00184
Associations Between Behavioral Effects of Bisphenol A and DNA Methylation in Zebrafish EmbryosCited by: 38
Author(s): Pål A. Olsvik, Paul Whatmore, Samuel Penglase, Kaja H. Skjærven, Marc Anglès d’Auriac, Ståle Ellingsen
Software Mentions: 4
Published: over 5 years ago
10.7554/eLife.46418
Self-sperm induce resistance to the detrimental effects of sexual encounters with males in hermaphroditic nematodesCited by: 20
Author(s): Lauren N. Booth, Travis J. Maures, Robin Yeo, Cindy Tantilert, Anne Brunet
Software Mentions: 4
Published: over 5 years ago
10.7554/eLife.34864
Gene-specific mechanisms direct glucocorticoid-receptor-driven repression of inflammatory response genes in macrophagesCited by: 51
Author(s): Maria A. Sacta, Bowranigan Tharmalingam, Maddalena Coppo, David A. Rollins, Dinesh K Deochand, Bradley Benjamin, Li Yu, Bin Zhang, Xiaoyu Hu, Rong Li, Yurii Chinenov, Inez Rogatsky
Software Mentions: 4
Published: over 6 years ago
10.1093/bioinformatics/btv612
LOLA: enrichment analysis for genomic region sets and regulatory elements in R and BioconductorCited by: 315
Author(s): Nathan C. Sheffield, Christoph Bock
Software Mentions: 3
Published: almost 9 years ago
10.1186/s12977-017-0378-x
Modulation of the functional association between the HIV-1 intasome and the nucleosome by histone amino-terminal tailsCited by: 14
Author(s): Mohamed Salah Benleulmi, Julien Matysiak, Xavier Robert, Csaba Miskey, Eric Mauro, Delphine Lapaillerie, Paul Lesbats, Stéphane Chaignepain, Daniel R. Henríquez, Christina Calmels, Oyindamola Oladosu, Eloïse Thierry, Óscar León, Marc Lavigne, Marie‐Line Andréola, Olivier Delelis, Zoltán Ivics, Marc Ruff, Patrice Gouet, Vincent Parissi
Software Mentions: 3
Published: almost 7 years ago
10.3390/ijms22041838
Interspecific Variation in One-Carbon Metabolism within the Ovarian Follicle, Oocyte, and Preimplantation Embryo: Consequences for Epigenetic Programming of DNA MethylationCited by: 13
Author(s): Connie Clare, Valerie Pestinger, Wing Yee Kwong, Desmond Tutt, Juan Xu, Helen Byrne, David A. Barrett, Richard D. Emes, Kevin D. Sinclair
Software Mentions: 2
Published: over 3 years ago
10.7554/eLife.53868
RNA-guided retargeting of Sleeping Beauty transposition in human cellsCited by: 33
Author(s): Adrian Kovač, Csaba Miskey, Michael Menzel, Esther Grueso, Andreas Gogol-Döring, Zoltán Ivics
Software Mentions: 1
Published: over 4 years ago