Volume 31, Issue 11 | November 2021

Research
- - The human ribosomal DNA array is composed of highly homogenized tandem clusters
    Yutaro Hori
    Akira Shimamoto
    Takehiko Kobayashi
    First Published August 18, 2021
  - Embryonic LTR retrotransposons supply promoter modules to somatic tissues
    Kosuke Hashimoto
    Eeva-Mari Jouhilahti
    Virpi Töhönen
    Piero Carninci
    Juha Kere
    First Published October 21, 2021
  - Mutational bias in spermatogonia impacts the anatomy of regulatory sites in the human genome
    Vera B. Kaiser
    Lana Talmane
    Yatendra Kumar
    Fiona Semple
    Marie MacLennan
    First Published August 20, 2021
  - Nuclease deficiencies alter plasma cell-free DNA methylation profiles
    Diana S.C. Han
    Meng Ni
    Rebecca W.Y. Chan
    Danny K.L. Wong
    Linda T. Hiraki
    Stefano Volpi Peiyong Jiang
    ...[+2 authors]...,
    Kathy O. Lui
    K.C. Allen Chan
    Rossa W.K. Chiu
    Y.M. Dennis Lo
    First Published September 1, 2021
  - RBFOX splicing factors contribute to a broad but selective recapitulation of peripheral tissue splicing patterns in the thymus
    Kathrin Jansen
    Noriko Shikama-Dorn
    Moustafa Attar
    Stefano Maio
    Maria Lopopolo
    First Published October 14, 2021
  - Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans
    James A. Cahill
    Joel Armstrong
    Alden Deran
    Carolyn J. Khoury
    Benedict Paten
    First Published October 19, 2021
  - Genome-wide oscillations in G + C density and sequence conservation
    Zarmik Moqtaderi
    Susan Brown
    Welcome Bender
    First Published October 14, 2021
  - Cellular abundance shapes function in piRNA-guided genome defense
    Pavol Genzor
    Parthena Konstantinidou
    Daniel Stoyko
    Amirhossein Manzourolajdad
    Celine Marlin Andrews
    First Published October 19, 2021
  - Shared evolutionary trajectories of three independent neo-sex chromosomes in Drosophila
    Masafumi Nozawa
    Yohei Minakuchi
    Kazuhiro Satomura
    Shu Kondo
    Atsushi Toyoda
    First Published October 21, 2021
Methods
- - Effective sequence similarity detection with strobemers
    Kristoffer Sahlin
    First Published October 19, 2021
  - Cancer-associated dynamics and potential regulators of intronic polyadenylation revealed by IPAFinder using standard RNA-seq data
    Zhaozhao Zhao
    Qiushi Xu
    Ran Wei
    Weixu Wang
    Dong Ding
    Yu Yang Jun Yao
    ...[+2 authors]...,
    Liye Zhang
    Yue-Qing Hu
    Gang Wei
    Ting Ni
    First Published September 2, 2021
  - Variational inference using approximate likelihood under the coalescent with recombination
    Xinhao Liu
    Huw A. Ogilvie
    Luay Nakhleh
    First Published August 23, 2021
  - Targeted regulation of transcription in primary cells using CRISPRa and CRISPRi
    Trine I. Jensen
    Nanna S. Mikkelsen
    Zongliang Gao
    Johannes Foßelteder
    Gabriel Pabst
    Esben Axelgaard
    ...[+1 authors]...,
    Anders Laustsen
    Saskia König
    Andreas Reinisch
    Rasmus O. Bak
    First Published August 18, 2021
  - Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes
    George Armstrong
    Kalen Cantrell
    Shi Huang
    Daniel McDonald
    Niina Haiminen
    Anna Paola Carrieri Qiyun Zhu Antonio Gonzalez Imran McGrath Kristen L. Beck Daniel Hakim Aki S. Havulinna Guillaume Méric Teemu Niiranen Leo Lahti Veikko Salomaa Mohit Jain Michael Inouye Austin D. Swafford
    ...[+14 authors]...,
    Ho-Cheol Kim
    Laxmi Parida
    Yoshiki Vázquez-Baeza
    Rob Knight
    First Published September 3, 2021
Resource
- - A systematic analysis of Trypanosoma brucei chromatin factors identifies novel protein interaction networks associated with sites of transcription initiation and termination
    Desislava P. Staneva
    Roberta Carloni
    Tatsiana Auchynnikava
    Pin Tong
    Juri Rappsilber
    First Published August 18, 2021

Table of Contents

Volume 31, Issue 11 | November 2021

Research

The human ribosomal DNA array is composed of highly homogenized tandem clusters

Embryonic LTR retrotransposons supply promoter modules to somatic tissues

Mutational bias in spermatogonia impacts the anatomy of regulatory sites in the human genome

Nuclease deficiencies alter plasma cell-free DNA methylation profiles

RBFOX splicing factors contribute to a broad but selective recapitulation of peripheral tissue splicing patterns in the thymus

Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans

Genome-wide oscillations in G + C density and sequence conservation

Cellular abundance shapes function in piRNA-guided genome defense

Shared evolutionary trajectories of three independent neo-sex chromosomes in Drosophila

Methods

Effective sequence similarity detection with strobemers

Cancer-associated dynamics and potential regulators of intronic polyadenylation revealed by IPAFinder using standard RNA-seq data

Variational inference using approximate likelihood under the coalescent with recombination

Targeted regulation of transcription in primary cells using CRISPRa and CRISPRi

Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes

Resource

A systematic analysis of Trypanosoma brucei chromatin factors identifies novel protein interaction networks associated with sites of transcription initiation and termination

Table of Contents

Volume 31, Issue 11 | November 2021

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Research

Methods

Resource