Volume 19, issue 1, December 2018
229 articles in this issue
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Lifestyle modifications: coordinating the tRNA epitranscriptome with codon bias to adapt translation during stress responses
Authors (first, second and last of 4)
- Cheryl Chan
- Phuong Pham
- Thomas J. Begley
- Content type: Opinion
- Open Access
- Published: 27 December 2018
- Article: 228
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SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing
Authors
- Jinzhou Yuan
- Jenny Sheng
- Peter A. Sims
- Content type: Short Report
- Open Access
- Published: 24 December 2018
- Article: 227
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Illuminating the genome-wide activity of genome editors for safe and effective therapeutics
Authors
- Yong Cheng
- Shengdar Q. Tsai
- Content type: Opinion
- Open Access
- Published: 22 December 2018
- Article: 226
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Making supplemental information more accessible
Authors
- Barbara Cheifet
- Content type: Editorial
- Open Access
- Published: 21 December 2018
- Article: 225
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Cell Hashing with barcoded antibodies enables multiplexing and doublet detection for single cell genomics
Authors (first, second and last of 8)
- Marlon Stoeckius
- Shiwei Zheng
- Rahul Satija
- Content type: Method
- Open Access
- Published: 19 December 2018
- Article: 224
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We simply cannot go on being so vague about ‘function’
Authors
- W. Ford Doolittle
- Content type: Research Highlight
- Open Access
- Published: 18 December 2018
- Article: 223
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Exploring the genetic basis of human population differences in DNA methylation and their causal impact on immune gene regulation
Authors (first, second and last of 11)
- Lucas T. Husquin
- Maxime Rotival
- Lluis Quintana-Murci
- Content type: Research
- Open Access
- Published: 18 December 2018
- Article: 222
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Predicting age from the transcriptome of human dermal fibroblasts
Authors (first, second and last of 9)
- Jason G. Fleischer
- Roberta Schulte
- Saket Navlakha
- Content type: Short Report
- Open Access
- Published: 20 December 2018
- Article: 221
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FORGe: prioritizing variants for graph genomes
Authors
- Jacob Pritt
- Nae-Chyun Chen
- Ben Langmead
- Content type: Software
- Open Access
- Published: 17 December 2018
- Article: 220
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Enhancers in the Peril lincRNA locus regulate distant but not local genes
Authors (first, second and last of 4)
- Abigail F. Groff
- A. Rasim Barutcu
- John L. Rinn
- Content type: Research
- Open Access
- Published: 11 December 2018
- Article: 219
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A novel FLI1 exonic circular RNA promotes metastasis in breast cancer by coordinately regulating TET1 and DNMT1
Authors (first, second and last of 16)
- Naifei Chen
- Gang Zhao
- Jiuwei Cui
- Content type: Research
- Open Access
- Published: 11 December 2018
- Article: 218
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Comparison of computational methods for the identification of topologically associating domains
Authors (first, second and last of 4)
- Marie Zufferey
- Daniele Tavernari
- Giovanni Ciriello
- Content type: Research
- Open Access
- Published: 10 December 2018
- Article: 217
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Analysis of 3D genomic interactions identifies candidate host genes that transposable elements potentially regulate
Authors (first, second and last of 9)
- Ramya Raviram
- Pedro P. Rocha
- Jane A. Skok
- Content type: Research
- Open Access
- Published: 13 December 2018
- Article: 216
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Genomic landscape of oxidative DNA damage and repair reveals regioselective protection from mutagenesis
Authors
- Anna R. Poetsch
- Simon J. Boulton
- Nicholas M. Luscombe
- Content type: Research
- Open Access
- Published: 07 December 2018
- Article: 215
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NmeCas9 is an intrinsically high-fidelity genome-editing platform
Authors (first, second and last of 19)
- Nadia Amrani
- Xin D. Gao
- Erik J. Sontheimer
- Content type: Research
- Open Access
- Published: 05 December 2018
- Article: 214
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miRTrace reveals the organismal origins of microRNA sequencing data
Authors (first, second and last of 6)
- Wenjing Kang
- Yrin Eldfjell
- Marc R. Friedländer
- Content type: Method
- Open Access
- Published: 04 December 2018
- Article: 213
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Downregulation of RdDM during strawberry fruit ripening
Authors (first, second and last of 8)
- Jingfei Cheng
- Qingfeng Niu
- Zhaobo Lang
- Content type: Research
- Open Access
- Published: 04 December 2018
- Article: 212
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Understanding tumor ecosystems by single-cell sequencing: promises and limitations
Authors
- Xianwen Ren
- Boxi Kang
- Zemin Zhang
- Content type: Review
- Open Access
- Published: 03 December 2018
- Article: 211
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Applications and potential of genome editing in crop improvement
Authors (first, second and last of 4)
- Yi Zhang
- Karen Massel
- Caixia Gao
- Content type: Review
- Open Access
- Published: 30 November 2018
- Article: 210
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A new look at an old question: when did the second whole genome duplication occur in vertebrate evolution?
Authors
- Linda Z. Holland
- Daniel Ocampo Daza
- Content type: Research Highlight
- Open Access
- Published: 28 November 2018
- Article: 209
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CHESS: a new human gene catalog curated from thousands of large-scale RNA sequencing experiments reveals extensive transcriptional noise
Authors (first, second and last of 9)
- Mihaela Pertea
- Alaina Shumate
- Steven L. Salzberg
- Content type: Database
- Open Access
- Published: 28 November 2018
- Article: 208
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Linking single-cell measurements of mass, growth rate, and gene expression
Authors (first, second and last of 13)
- Robert J. Kimmerling
- Sanjay M. Prakadan
- Scott R. Manalis
- Content type: Method
- Open Access
- Published: 27 November 2018
- Article: 207
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Transparent peer review trial: the results
Authors
- Andrew Cosgrove
- Barbara Cheifet
- Content type: Editorial
- Open Access
- Published: 27 November 2018
- Article: 206
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Pooled extracellular receptor-ligand interaction screening using CRISPR activation
Authors (first, second and last of 4)
- Zheng-Shan Chong
- Shuhei Ohnishi
- Gavin J. Wright
- Content type: Method
- Open Access
- Published: 26 November 2018
- Article: 205
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Livestock 2.0 – genome editing for fitter, healthier, and more productive farmed animals
Authors (first, second and last of 8)
- Christine Tait-Burkard
- Andrea Doeschl-Wilson
- Mick Watson
- Content type: Review
- Open Access
- Published: 26 November 2018
- Article: 204
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GRIPT: a novel case-control analysis method for Mendelian disease gene discovery
Authors (first, second and last of 10)
- Jun Wang
- Li Zhao
- Rui Chen
- Content type: Method
- Open Access
- Published: 26 November 2018
- Article: 203
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CODEX2: full-spectrum copy number variation detection by high-throughput DNA sequencing
Authors (first, second and last of 6)
- Yuchao Jiang
- Rujin Wang
- Nancy R. Zhang
- Content type: Method
- Open Access
- Published: 26 November 2018
- Article: 202
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The bird’s-eye view on chromosome evolution
Authors
- Guojie Zhang
- Content type: Research Highlight
- Open Access
- Published: 23 November 2018
- Article: 201
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N6-methyldeoxyadenosine directs nucleosome positioning in Tetrahymena DNA
Authors (first, second and last of 12)
- Guan-Zheng Luo
- Ziyang Hao
- Chuan He
- Content type: Research
- Open Access
- Published: 19 November 2018
- Article: 200
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Ten things you should know about transposable elements
Authors (first, second and last of 12)
- Guillaume Bourque
- Kathleen H. Burns
- Cédric Feschotte
- Content type: Review
- Open Access
- Published: 19 November 2018
- Article: 199
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KrakenUniq: confident and fast metagenomics classification using unique k-mer counts
Authors
- F. P. Breitwieser
- D. N. Baker
- S. L. Salzberg
- Content type: Software
- Open Access
- Published: 16 November 2018
- Article: 198
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Conferring DNA virus resistance with high specificity in plants using virus-inducible genome-editing system
Authors (first, second and last of 6)
- Xiang Ji
- Xiaomin Si
- Caixia Gao
- Content type: Short report
- Open Access
- Published: 15 November 2018
- Article: 197
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VIPER: variability-preserving imputation for accurate gene expression recovery in single-cell RNA sequencing studies
Authors
- Mengjie Chen
- Xiang Zhou
- Content type: Method
- Open Access
- Published: 12 November 2018
- Article: 196
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LncRNAs in polyploid cotton interspecific hybrids are derived from transposon neofunctionalization
Authors (first, second and last of 11)
- Ting Zhao
- Xiaoyuan Tao
- Xueying Guan
- Content type: Research
- Open Access
- Published: 12 November 2018
- Article: 195
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Expression quantitative trait loci in the developing human brain and their enrichment in neuropsychiatric disorders
Authors (first, second and last of 15)
- Heath E. O’Brien
- Eilis Hannon
- Nicholas J. Bray
- Content type: Research
- Open Access
- Published: 12 November 2018
- Article: 194
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Genomes reveal marked differences in the adaptive evolution between orangutan species
Authors (first, second and last of 13)
- Maja P. Mattle-Greminger
- Tugce Bilgin Sonay
- Michael Krützen
- Content type: Research
- Open Access
- Published: 15 November 2018
- Article: 193
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Live imaging and tracking of genome regions in CRISPR/dCas9 knock-in mice
Authors (first, second and last of 9)
- Jinzhi Duan
- Guangqing Lu
- Yu Zhang
- Content type: Short report
- Open Access
- Published: 08 November 2018
- Article: 192
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Simulation-based benchmarking of isoform quantification in single-cell RNA-seq
Authors (first, second and last of 4)
- Jennifer Westoby
- Marcela Sjöberg Herrera
- Martin Hemberg
- Content type: Method
- Open Access
- Published: 07 November 2018
- Article: 191
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Recurrent mutations at estrogen receptor binding sites alter chromatin topology and distal gene expression in breast cancer
Authors (first, second and last of 9)
- Jiekun Yang
- Xiaolong Wei
- Mazhar Adli
- Content type: Research
- Open Access
- Published: 07 November 2018
- Article: 190
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LaminA/C regulates epigenetic and chromatin architecture changes upon aging of hematopoietic stem cells
Authors (first, second and last of 16)
- Ani Grigoryan
- Novella Guidi
- Maria Carolina Florian
- Content type: Research
- Open Access
- Published: 07 November 2018
- Article: 189
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Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection
Authors (first, second and last of 23)
- Anna Y. Lee
- Adam D. Ewing
- Paul C. Boutros
- Content type: Research
- Open Access
- Published: 06 November 2018
- Article: 188
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DNA methylation and de-methylation using hybrid site-targeting proteins
Authors
- Yong Lei
- Yung-Hsin Huang
- Margaret A. Goodell
- Content type: Review
- Open Access
- Published: 06 November 2018
- Article: 187
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Genome editing: from tools to biological insights
Authors
- Yixin Yao
- Content type: Editorial
- Open Access
- Published: 06 November 2018
- Article: 186
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CRISPR/Cas9 offers a new tool for studying the role of chromatin architecture in disease pathogenesis
Authors
- Xiang Guo
- Ann Dean
- Content type: Research Highlight
- Open Access
- Published: 06 November 2018
- Article: 185
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Understanding and repurposing CRISPR-mediated alternative splicing
Authors
- Jordan L. Smith
- Haiwei Mou
- Wen Xue
- Content type: Research Highlight
- Open Access
- Published: 06 November 2018
- Article: 184
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omniCLIP: probabilistic identification of protein-RNA interactions from CLIP-seq data
Authors
- Philipp Drewe-Boss
- Hans-Hermann Wessels
- Uwe Ohler
- Content type: Method
- Open Access
- Published: 01 November 2018
- Article: 183
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Visualizing the dynamics of histone variants in the S-phase nucleus
Authors
- Stella Maxouri
- Stavros Taraviras
- Zoi Lygerou
- Content type: Research Highlight
- Open Access
- Published: 31 October 2018
- Article: 182
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Phytophthora methylomes are modulated by 6mA methyltransferases and associated with adaptive genome regions
Authors (first, second and last of 15)
- Han Chen
- Haidong Shu
- Suomeng Dong
- Content type: Research
- Open Access
- Published: 31 October 2018
- Article: 181
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Parents in science
Authors
- Emily Perry
- Kristin Tessmar-Raible
- Florian Raible
- Content type: Q and A
- Open Access
- Published: 29 October 2018
- Article: 180
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