TEXT stringlengths 0 3.96M | YEAR stringclasses 6
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|---|---|---|---|---|---|
1
Context-dependent requirement of H3K9 methyltransferase activity during cellular
reprogramming to iPSCs
Simon Vidal1,2,5,10, Alexander Polyzos9, Jorge Morales Valencia3, Hongsu Wang1,2, Emily
Swanzey1,2,5, Ly-sha Ee1,2,5,8, Bhishma Amlani1,2,5, Shengjiang Tu3,6, Yixiao Gong4,5, Aristotelis
Tsirigos4,5,9,... | 2019 | Context-dependent requirement of H3K9 methyltransferase activity during cellular reprogramming to iPSCs | 10.1101/634949 | [
"Vidal Simon",
"Polyzos Alexander",
"Valencia Jorge Morales",
"Wang Hongsu",
"Swanzey Emily",
"Ee Ly-sha",
"Amlani Bhishma",
"Tu Shengjiang",
"Gong Yixiao",
"Tsirigos Aristotelis",
"Kim Sangyong",
"Apostolou Effie",
"Stadtfeld Matthias"
] | creative-commons |
Transovarial transmission fuels persistent infections of a
core virome in the Chagas disease vector Rhodnius
prolixus
Tarcísio Fontenele de Brito1¶, Vitor Lima Coelho1¶, Maira Arruda Cardoso1, Ingrid
Alexandre de Abreu Brito1, Fides Lea Zenk2, Nicola... | 2020 | Transovarial transmission fuels persistent infections of a core virome in the Chagas disease vector Rhodnius prolixus | 10.1101/2020.10.18.344325 | [
"de Brito Tarcísio Fontenele",
"Coelho Vitor Lima",
"Cardoso Maira Arruda",
"de Abreu Brito Ingrid Alexandre",
"Zenk Fides Lea",
"Iovino Nicola",
"Pane Attilio"
] | null |
LIFE AND WORK OF RESEARCHERS TRAPPED IN THE COVID-19
PANDEMIC VICIOUS CYCLE
REDUCED PRODUCTIVITY, INTERNAL PRESSURE TO PROGRESS, AND
INCREASED WORKLOAD
S. Aryan Ghaffarizadeh ∗
Institute of Biomaterials and Biomedical Engineering, University of Toronto, Toronto, ON, Canada
S. Arman Ghaffarizadeh ∗
Department of Mechani... | 2021 | Life and work of researchers trapped in the COVID-19 pandemic vicious cycle | 10.1101/2021.02.02.429476 | [
"Ghaffarizadeh S. Aryan",
"Ghaffarizadeh S. Arman",
"Behbahani Amir H.",
"Mehdizadeh Mohammad",
"Olechowski Alison"
] | creative-commons |
1
The proteomic inventory reveals the chloroplast ribosome as nexus within a
1
diverse protein network
2
3
4
Lisa Désirée Westrich1, Vincent Leon Gotsmann1, Claudia Herkt1, Fabian Ries1,
5
Tanja Kazek1, Raphael Trösch1, Silvia Ramundo2, Jörg Nickelsen3, Laura
6
Armbruster4, Markus Wirtz4, Zuzana Stor... | 2019 | The proteomic inventory reveals the chloroplast ribosome as nexus within a diverse protein network | 10.1101/2019.12.12.874503 | [
"Westrich Lisa Désirée",
"Gotsmann Vincent Leon",
"Herkt Claudia",
"Ries Fabian",
"Kazek Tanja",
"Trösch Raphael",
"Ramundo Silvia",
"Nickelsen Jörg",
"Armbruster Laura",
"Wirtz Markus",
"Storchová Zuzana",
"Raeschle Markus",
"Willmund Felix"
] | creative-commons |
Membrane Nanoparticles Derived from ACE2-rich Cells Block SARS-CoV-2 Infection
Cheng Wang1#, Shaobo Wang2#, Yin Chen1#, Jianqi Zhao1#, Songling Han1, Gaomei Zhao1,
Jing Kang1, Yong Liu2, Liting Wang3, Xiaoyang Wang3, Yang Xu1, Song Wang1, Yi Huang3,
Junping Wang1*, Jinghong Zhao2*
1. State Key Laboratory of Trauma,... | 2020 | Membrane Nanoparticles Derived from ACE2-rich Cells Block SARS-CoV-2 Infection | 10.1101/2020.08.12.247338 | [
"Wang Cheng",
"Wang Shaobo",
"Chen Yin",
"Zhao Jianqi",
"Han Songling",
"Zhao Gaomei",
"Kang Jing",
"Liu Yong",
"Wang Liting",
"Wang Xiaoyang",
"Xu Yang",
"Wang Song",
"Huang Yi",
"Wang Junping",
"Zhao Jinghong"
] | null |
Random Forest approach for the identification of relationships
between epigenetic marks and its application to robust
assignment of chromatin states
Leandro Murgas Saavedra 1,2, Gianluca Pollastri3, Erick Riquelme4, Mauricio S´aez 5,∗
and Alberto J.M. Martin 2,∗
January 12, 2023
1Programa de Doctorado en Gen´omica Inte... | 2023 | Random Forest approach for the identification of relationships between epigenetic marks and its application to robust assignment of chromatin states | 10.1101/2023.01.12.523636 | [
"Saavedra Leandro Murgas",
"Pollastri Gianluca",
"Riquelme Erick",
"Sáez Mauricio",
"Martin Alberto J.M."
] | creative-commons |
Yabut et al. 2021 (preprint)
1
Aberrant FGF signaling promotes granule neuron
precursor expansion in SHH subgroup infantile
medulloblastoma
Odessa R. Yabut1,*, Hector Gomez1, Jessica Arela1, Jesse Garcia Castillo1, Thomas Ngo1, 2, and
Samuel J. Pleasure1, 3,*
1Department of Neurology, Weill Institute for Ne... | 2021 | Aberrant FGF signaling promotes granule neuron precursor expansion in SHH subgroup infantile medulloblastoma | 10.1101/2021.06.23.449636 | [
"Yabut Odessa R.",
"Gomez Hector",
"Arela Jessica",
"Castillo Jesse Garcia",
"Ngo Thomas",
"Pleasure Samuel J."
] | creative-commons |
Obtaining polygenic transcriptome risk scores (PTRS) directly
from GWAS summary statistics
Yanyu Liang1,∗
1 Section of Genetic Medicine, University of Chicago, Chicago, Illinois, United States of America
∗ Correspondence to yanyul@uchicago.edu
Abstract
Polygenic Transcriptome Risk Scores (PTRS) are variations of Polyge... | 2022 | Obtaining polygenic transcriptome risk scores (PTRS) directly from GWAS summary statistics | 10.1101/2022.07.10.499509 | null | creative-commons |
Expression of a miRNA targeting mutated SOD1 in astrocytes induces motoneuron
plasticity and improves neuromuscular function in ALS mice
Rochat C.1, Bernard-Marissal N.1,6, Pradervand S.3, Perrin F.E.4, Raoul C.5, Aebischer P.1,
Schneider B.L.1,2*
1 Brain Mind Institute, Ecole Polytechnique Fédérale de Lausanne (EP... | 2021 | Expression of a miRNA targeting mutated SOD1 in astrocytes induces motoneuron plasticity and improves neuromuscular function in ALS mice | 10.1101/2021.01.08.425706 | [
"Rochat C.",
"Bernard-Marissal N.",
"Pradervand S.",
"Perrin F.E.",
"Raoul C.",
"Aebischer P.",
"Schneider B.L."
] | creative-commons |
Abbreviations: CV = Cross Validation; DWI = Diffusion Weighted Imaging; fMRI =
Functional MRI; FA = Fractional Anisotropy; MI = Mutual Information; MSE = Mean
Squared Error; LH = Left Hemisphere; LOO = Leave One Out; MTG = Middle Temporal
Gyrus; RBF = Radial Basis Function; RCC = Reliable Control Connectome; RH = ... | 2021 | Glass Half Full: Preserved Anatomical Bypasses Predict Variance in Language Functions After Stroke | 10.1101/2021.08.31.458462 | [
"Erickson B.A.",
"Kim B.",
"Deck B.L.",
"Pustina D.",
"DeMarco A.T.",
"Dickens J.V.",
"Kelkar A.S.",
"Turkeltaub P.E.",
"Medaglia J.D."
] | null |
1
Description and whole genome sequencing of Eikenella exigua sp. nov., isolated from
1
brain abscess and blood.
2
Kristin A. Stormo1,2, Randi M. Nygaard1, Torbjørn S. Bruvold1, Grete Dimmen1, Paul
3
Christoffer Lindemann1, Stina Jordal2, Øyvind Kommedal1.
4
1 Department of Microbiology, Haukeland Universi... | 2019 | Description and whole genome sequencing of sp. nov., isolated from brain abscess and blood | 10.1101/728162 | [
"Stormo Kristin A.",
"Nygaard Randi M.",
"Bruvold Torbjørn S.",
"Dimmen Grete",
"Lindemann Paul Christoffer",
"Jordal Stina",
"Kommedal Øyvind"
] | creative-commons |
Communication dynamics in the human connectome shape the cortex-wide
propagation of direct electrical stimulation
Caio Seguin1,2,∗ Maciej Jedynak3, Olivier David3, Sina Mansour L1,4, Olaf Sporns2,5,6,7, and Andrew Zalesky1,4
1Melbourne Neuropsychiatry Centre, The University of Melbourne and Melbourne Health, Melbourne,... | 2022 | Communication dynamics in the human connectome shape the cortex-wide propagation of direct electrical stimulation | 10.1101/2022.07.05.498875 | [
"Seguin Caio",
"Jedynak Maciej",
"David Olivier",
"Mansour L Sina",
"Sporns Olaf",
"Zalesky Andrew"
] | creative-commons |
1
Quantitative assessment of fecal contamination in multiple environmental
sample types in urban communities in Dhaka, Bangladesh using SaniPath
microbial approach
Nuhu Amin1*, Mahbubur Rahman1, Suraja Raj2, Shahjahan Ali1, Jamie Green2, Shimul Das1,
Solaiman Doza1, Momenul Haque Mondol1,3, Yuke Wang2, Mohammad Amin... | 2019 | Quantitative assessment of fecal contamination in multiple environmental sample types in urban communities in Dhaka, Bangladesh using SaniPath microbial approach | 10.1101/723528 | [
"Amin Nuhu",
"Rahman Mahbubur",
"Raj Suraja",
"Ali Shahjahan",
"Green Jamie",
"Das Shimul",
"Doza Solaiman",
"Mondol Momenul Haque",
"Wang Yuke",
"Islam Mohammad Aminul",
"Alam Mahbub-Ul",
"Huda Tarique Md. Nurul",
"Haque Sabrina",
"Unicomb Leanne",
"Joseph George",
"Moe Christine L."
... | creative-commons |
1
Bipartite functional fractionation within the neural system for
social cognition supports the psychological continuity of self vs. other
Rocco Chiou1✉, Christopher R. Cox2, & Matthew A. Lambon Ralph1✉
1 MRC Cognition & Brain Sciences Unit, University of Cambridge, UK
2 Department of Psychology, Louisia... | 2021 | Bipartite functional fractionation within the neural system for social cognition supports the psychological continuity of self . other | 10.1101/2021.04.04.438408 | [
"Chiou Rocco",
"Cox Christopher R.",
"Ralph Matthew A. Lambon"
] | creative-commons |
A comprehensive mechanistic model of adipocyte
signaling with layers of confidence
William L¨ovfors1,2, Cecilia J¨onsson1,3, Charlotta S. Olofsson4, Gunnar
Cedersund1,5,*, and Elin Nyman1,*,**
1Department of Biomedical Engineering, Link¨oping University, Link¨oping,
Sweden
2Department of Mathematics, Link¨oping Univers... | 2022 | A comprehensive mechanistic model of adipocyte signaling with layers of confidence | 10.1101/2022.03.11.483974 | [
"Lövfors William",
"Jönsson Cecilia",
"Olofsson Charlotta S.",
"Cedersund Gunnar",
"Nyman Elin"
] | creative-commons |
1
Understanding the paradoxical mechanical response of in-phase A-tracts
at different force regimes
Alberto Marin-Gonzalez1, Cesar L. Pastrana1, Rebeca Bocanegra2, Alejandro Martín-González1, J.G.
Vilhena3, 4, Rubén Pérez4, 5, Borja Ibarra2, 6, Clara Aicart-Ramos1*, Fernando Moreno-Herrero1*
1Department of Mac... | 2019 | Understanding the paradoxical mechanical response of in-phase A-tracts at different force regimes | 10.1101/854968 | [
"Marin-Gonzalez Alberto",
"Pastrana Cesar L.",
"Bocanegra Rebeca",
"Martín-González Alejandro",
"Vilhena J.G.",
"Pérez Rubén",
"Ibarra Borja",
"Aicart-Ramos Clara",
"Moreno-Herrero Fernando"
] | creative-commons |
Sodium valproate protects against neuronal ferroptosis in epilepsy via
suppressing lysyl oxidase
Qin Li1, 2, 3, 4, 8, Qiu-Qi Li1, 2, 3, 4, Ji-Ning Jia1, 2, 3, 4, Zhao-Qian Liu1, 2, 3, 4, Hong-Hao
Zhou1, 2, 3, 4, Wei-Lin Jin5, 6, 7, *, Xiao-Yuan Mao1, 2, 3, 4 *
1Department of Clinical Pharmacology, Xiangya Hosp... | 2020 | Sodium valproate protects against neuronal ferroptosis in epilepsy via suppressing lysyl oxidase | 10.1101/2020.05.31.126227 | [
"Li Qin",
"Li Qiu-Qi",
"Jia Ji-Ning",
"Liu Zhao-Qian",
"Zhou Hong-Hao",
"Jin Wei-Lin",
"Mao Xiao-Yuan"
] | null |
A physical theory of larval Drosophila behaviour
Jane Loveless1,2,4,∗, Alastair Garner2, Abdul Raouf Issa1, Ruair´ı J. V. Roberts3,
Barbara Webb4, Lucia L. Prieto-Godino3, Tomoko Ohyama2,†,∗ Claudio R. Alonso1,†,∗
1 Sussex Neuroscience, School of Life Sciences, University of Sussex,
Brighton, BN1 9QG, United Kingdom
2 ... | 2020 | A physical theory of larval behaviour | 10.1101/2020.08.25.266163 | [
"Loveless Jane",
"Garner Alastair",
"Issa Abdul Raouf",
"Roberts Ruairí J. V.",
"Webb Barbara",
"Prieto-Godino Lucia L.",
"Ohyama Tomoko",
"Alonso Claudio R."
] | creative-commons |
1
1
The value of non-motor features and genetic variants of Parkinson’s disease for
2
clustering Lewy body diseases
3
Authors: Olaia Lucas-Jiménez, MSc1, Ibai Diez, PhD2,3, Natalia Ojeda, PhD1 Naroa
4
Ibarretxe-Bilbao, PhD1, Javier Peña, PhD1, Beatriz Tijero, MD, PhD4, Marta Galdós,
5
MD5, Ane Murueta-Goyena, PhD4, ... | 2019 | The value of non-motor features and genetic variants of Parkinson’s disease for clustering Lewy body diseases | 10.1101/551507 | [
"Lucas-Jiménez Olaia",
"Diez Ibai",
"Ojeda Natalia",
"Ibarretxe-Bilbao Naroa",
"Peña Javier",
"Tijero Beatriz",
"Galdós Marta",
"Murueta-Goyena Ane",
"Pino Rocío Del",
"Acera Marian",
"Gómez-Esteban Juan Carlos",
"Gabilondo Iñigo"
] | creative-commons |
Moose or spruce: A systems analysis model for managing
conflicts between moose and forestry in Sweden
Oskar Franklin1*, Andrey Krasovskiy1, Florian Kraxner1, Anton Platov1, Dmitry Schepaschenko1, Sylvain Leduc1,
Brady Mattsson2
1: IIASA, International Institute for Applied Systems Analysis, Ecosystem Services a... | 2020 | Moose or spruce: A systems analysis model for managing conflicts between moose and forestry in Sweden | 10.1101/2020.08.11.241372 | [
"Franklin Oskar",
"Krasovskiy Andrey",
"Kraxner Florian",
"Platov Anton",
"Schepaschenko Dmitry",
"Leduc Sylvain",
"Mattsson Brady"
] | creative-commons |
bioPROTACs establish RAS as a degradable target and provide novel
RAS biology insights
Shuhui Lim1, Regina Khoo1, Yu-Chi Juang1, Pooja Gopal1, Huibin Zhang1, Constance Yeo1,
Khong Ming Peh1, Jinkai Teo1, Simon Ng1, Brian Henry1 and Anthony W. Partridge1,*
1MSD, Singapore
*Corresponding Author:
Anthony... | 2020 | bioPROTACs establish RAS as a degradable target and provide novel RAS biology insights | 10.1101/2020.06.26.174565 | [
"Lim Shuhui",
"Khoo Regina",
"Juang Yu-Chi",
"Gopal Pooja",
"Zhang Huibin",
"Yeo Constance",
"Peh Khong Ming",
"Teo Jinkai",
"Ng Simon",
"Henry Brian",
"Partridge Anthony W."
] | null |
Nitric oxide (NO) signaling in Trichoplax and related species:
Microchemical characterization and the lineage-specific
diversification
Leonid L. Moroz1¶*, Daria Y. Romanova2,4¶, Mikhail A. Nikitin3¶, Dosung Sohn1¶, Andrea B.
Kohn1,¶, Emilie Neveu4, Frederique Varoqueaux4*, Dirk Fasshauer4
1Whitney Labor... | 2020 | Nitric oxide (NO) signaling in and related species: Microchemical characterization and the lineage-specific diversification | 10.1101/2020.04.10.034207 | [
"Moroz Leonid L.",
"Romanova Daria Y.",
"Nikitin Mikhail A.",
"Sohn Dosung",
"Kohn Andrea B.",
"Neveu Emilie",
"Varoqueaux Frederique",
"Fasshauer Dirk"
] | creative-commons |
Targeting uncoupling of copy number and gene expression in cancers
Vakul Mohanty1, Fang Wang1, Gordon Mills2, Ken Chen1,3
1. Department of Bioinformatics and Computational biology, The University of Texas MD
Anderson Cancer center
2. Gordon’s OHSU affiliation
3. Corresponding author: Ken Chen, Department of bioinf... | 2020 | Targeting uncoupling of copy number and gene expression in cancers | 10.1101/2020.08.28.272641 | [
"Mohanty Vakul",
"Wang Fang",
"Mills Gordon",
"Chen Ken"
] | null |
1
Exploratory analysis of multiple traits co-adaptations in the population
1
history
2
3
4
Reiichiro Nakamichi1*, Shuichi Kitada2, and Hirohisa Kishino34*
5
6
1 Japan Fisheries Research and Education Agency, Yokohama 236-8648, Japan
7
2 Tokyo University of Marine Science and Technology, Tokyo 108-84... | 2021 | Exploratory analysis of multiple traits co-adaptations in the population history | 10.1101/452581 | [
"Nakamichi Reiichiro",
"Kitada Shuichi",
"Kishino Hirohisa"
] | creative-commons |
1
CaaX-like protease of cyanobacterial origin is required for complex plastid biogenesis in
1
malaria parasites
2
3
Thomas R. Meistera, Yong Tangb, Michael J. Pulkoski-Grossb, Ellen Yehb,c,d,e,#
4
5
aDepartment of Molecular and Cellular Physiology, Stanford School of Medicine, Stanford,
6
California, U... | 2020 | CaaX-like protease of cyanobacterial origin is required for complex plastid biogenesis in malaria parasites | 10.1101/2020.06.02.130229 | [
"Meister Thomas R.",
"Tang Yong",
"Pulkoski-Gross Michael J.",
"Yeh Ellen"
] | creative-commons |
Fine oculomotor knowledge enhances high-acuity vision
Zhetuo Zhao1,2, Ehud Ahissar3, Jonathan D. Victor4, Michele Rucci1,2
1Department of Brain and Cognitive Sciences and 2Center for Visual Science, University of
Rochester, NY, USA. 3Department of Brain Sciences, Weizmann Institute of Science, Rehovot,
Israel. 4Feil Fa... | 2022 | Fine oculomotor knowledge enhances high-acuity vision | 10.1101/2022.03.17.483854 | [
"Zhao Zhetuo",
"Ahissar Ehud",
"Victor Jonathan D.",
"Rucci Michele"
] | null |
1
Novel AT1R-Allosteric Ligands Mask the Preeclampsia Auto-antibody
Epitope and Decrease Angiotensin-induced Vasoconstriction
Khuraijam Dhanachandra Singh, Zaira P. Jara, Terri Harford, Prasenjit Prasad Saha,
Triveni R. Pardhi, Russell Desnoyer and Sadashiva S. Karnik*
Department of Cardiovascular and ... | 2021 | Novel AT1R-Allosteric Ligands Mask the Preeclampsia Auto-antibody Epitope and Decrease Angiotensin-induced Vasoconstriction | 10.1101/2021.04.30.442172 | [
"Singh Khuraijam Dhanachandra",
"Jara Zaira P.",
"Harford Terri",
"Saha Prasenjit Prasad",
"Pardhi Triveni R.",
"Desnoyer Russell",
"Karnik Sadashiva S."
] | null |
1
Stridulations of Melolontha spp. larvae open up new possibilities for species-specific pest
1
monitoring in soils
2
3
Authors: Carolyn-Monika Görres1,2 & David Chesmore3
4
1Department of Applied Ecology, Hochschule Geisenheim University, Geisenheim, Germany,
5
e-mail: carolyn.goerres@hs-gm.de
6
2Depar... | 2019 | Stridulations of larvae open up new possibilities for species-specific pest monitoring in soils | 10.1101/520734 | [
"Görres Carolyn-Monika",
"Chesmore David"
] | creative-commons |
1
Title: The dual nature of metacommunity variability
1
Running head: Metacommunity variability
2
Authors: Thomas Lamy1,2, Nathan I. Wisnoski3,4, Riley Andrade5,6, Max C.N. Castorani7, Aldo
3
Compagnoni8,9, Nina Lany10,11, Luca Marazzi12, Sydne Record13, Christopher M. Swan14,
4
Jonathan D. Tonkin15,16, Nico... | 2021 | The dual nature of metacommunity variability | 10.1101/2021.04.09.439168 | [
"Lamy Thomas",
"Wisnoski Nathan I.",
"Andrade Riley",
"Castorani Max C.N.",
"Compagnoni Aldo",
"Lany Nina",
"Marazzi Luca",
"Record Sydne",
"Swan Christopher M.",
"Tonkin Jonathan D.",
"Voelker Nicole",
"Wang Shaopeng",
"Zarnetske Phoebe L.",
"Sokol Eric R."
] | creative-commons |
networkGWAS: A network-based approach to discover genetic
associations
Giulia Muzio1,2[0000�0001�5999�2030], Leslie O’Bray1,2[0000�0001�8999�9962], Laetitia
Meng-Papaxanthos1,2,3[0000�0002�0521�621X], Juliane Klatt1,2[0000�0003�4096�566X], and Karsten
Borgwardt1,2[0000�0001�7221�2393]
1 Department of Biosystems Science... | 2023 | networkGWAS: A network-based approach to discover genetic associations | 10.1101/2021.11.11.468206 | [
"Muzio Giulia",
"O’Bray Leslie",
"Meng-Papaxanthos Laetitia",
"Klatt Juliane",
"Borgwardt Karsten"
] | creative-commons |
1
The bladder microbiome, metabolome, cytokines,
1
and phenotypes in patients with systemic lupus erythematosus
2
3
Fengping Liu1†, Jingjie Du2†, Qixiao Zhai3†, Jialin Hu4†, Aaron W. Miller5†, Tianli Ren6†,
4
Yangkun Feng4, Peng Jiang4, Lei Hu4, Jiayi Sheng4, Chaoqun Gu4, Ren Yan7, Longxian Lv7*,
5
Alan J... | 2022 | The bladder microbiome, metabolome, cytokines, and phenotypes in patients with systemic lupus erythematosus | 10.1101/2022.01.13.476281 | [
"Liu Fengping",
"Du Jingjie",
"Zhai Qixiao",
"Hu Jialin",
"Miller Aaron W.",
"Ren Tianli",
"Feng Yangkun",
"Jiang Peng",
"Hu Lei",
"Sheng Jiayi",
"Gu Chaoqun",
"Yan Ren",
"Lv Longxian",
"Wolfe Alan J.",
"Feng Ninghan"
] | creative-commons |
1
Direct and indirect impacts of positive selection on genomic variation in Drosophila
1
serrata
2
3
Yiguan Wang1,3, Adam J. Reddiex1,2, Scott L. Allen1, Stephen F. Chenoweth1,*
4
5
1. School of Biological Sciences, The University of Queensland, St Lucia, Australia.
6
2. Biological Data Science Instit... | 2022 | Direct and indirect impacts of positive selection on genomic variation in | 10.1101/2022.03.31.486660 | [
"Wang Yiguan",
"Reddiex Adam J.",
"Allen Scott L.",
"Chenoweth Stephen F."
] | creative-commons |
Systematic reduction of the dimensionality of natural scenes allows accurate predictions
of retinal ganglion cell spike outputs.
Julian Freedland and Fred Rieke
Abstract
The mammalian retina engages a broad array of linear and nonlinear circuit mechanisms to
convert natural scenes into retinal ganglion cell (R... | 2021 | Systematic reduction of the dimensionality of natural scenes allows accurate predictions of retinal ganglion cell spike outputs | 10.1101/2021.10.21.465331 | [
"Freedland Julian",
"Rieke Fred"
] | creative-commons |
1
1
2
3
4
Bulinus snails in the Lake Victoria Basin in Kenya: systematics and their role as hosts for
5
schistosomes
6
7
8
Caitlin R. Babbitt1*, Martina R. Laidemitt1, Martin W. Mutuku2, Polycup O. Oraro2, Sara V.
9
Brant1, Gerald M. Mkoji2, and Eric S. Loker1
10
11
1Center for Evolutionary and Theoretical Immunology... | 2022 | snails in the Lake Victoria Basin in Kenya: systematics and their role as hosts for schistosomes | 10.1101/2022.08.22.504901 | [
"Babbitt Caitlin R.",
"Laidemitt Martina R.",
"Mutuku Martin W.",
"Oraro Polycup O.",
"Brant Sara V.",
"Mkoji Gerald M.",
"Loker Eric S."
] | creative-commons |
Modulation of the extracellular matrix by Streptococcus gallolyticus subsp. gallolyticus and
importance in cell proliferation
Ritesh Kumar1#, John Taylor1, Jain Antrix2, Sung Yun Jung3, and Yi Xu1, 4, 5*
1Center for Infectious and Inflammatory Diseases, Institute of Biosciences and Technology,
Texas A&M Health Scie... | 2022 | Modulation of the extracellular matrix by subsp. and importance in cell proliferation | 10.1101/2022.03.14.484142 | [
"Kumar Ritesh",
"Taylor John",
"Antrix Jain",
"Jung Sung Yun",
"Xu Yi"
] | creative-commons |
Human IgG cell neutralizing monoclonal antibodies block SARS-
CoV-2 infection
Jinkai Wan1#, Shenghui Xing1#, Longfei Ding2#, Yongheng Wang4#, Songhua Yuan2,
Chengli Qiu2, Chen Zhao2, Xiaoyan Zhang3, Xiangxi Wang5*, Yanan Lu4*, Jianqing
Xu3*, Fei Lan1*.
1Key Laboratory of Epigenetics and Metabolism, and Institut... | 2020 | Human IgG cell neutralizing monoclonal antibodies block SARS-CoV-2 infection | 10.1101/2020.05.19.104117 | [
"Wan Jinkai",
"Xing Shenghui",
"Ding Longfei",
"Wang Yongheng",
"Yuan Songhua",
"Qiu Chengli",
"Zhao Chen",
"Zhang Xiaoyan",
"Wang Xiangxi",
"Lu Yanan",
"Xu Jianqing",
"Lan Fei"
] | null |
1
Novel phylogeny of angiosperms inferred from whole-genome microsynteny analysis
Tao Zhao1,2, Jiayu Xue3, Shu-min Kao1,2, Zhen Li1,2, Arthur Zwaenepoel1,2, M. Eric
Schranz4, Yves Van de Peer1,2,5
1Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent,
Belgium
2Center for Plant System... | 2020 | Novel phylogeny of angiosperms inferred from whole-genome microsynteny analysis | 10.1101/2020.01.15.908376 | [
"Zhao Tao",
"Xue Jiayu",
"Kao Shu-min",
"Li Zhen",
"Zwaenepoel Arthur",
"Schranz M. Eric",
"Van de Peer Yves"
] | creative-commons |
1
NITROGEN LIMITATION ADAPTATION functions as a negative
regulator of Arabidopsis immunity
Beatriz Val-Torregrosa1, Mireia Bundó1, Tzyy-Jen Chiou2, Victor Flors3 and Blanca
San Segundo1,4 *
1 Centre for Research in Agricultural Genomics (CRAG) CSIC-IRTA-UAB-UB. Edifici
CRAG, Carrer de la Vall Moronta... | 2021 | functions as a negative regulator of Arabidopsis immunity | 10.1101/2021.12.09.471910 | [
"Val-Torregrosa Beatriz",
"Bundó Mireia",
"Chiou Tzyy-Jen",
"Flors Victor",
"Segundo Blanca San"
] | null |
1
Widespread contribution of transposable
elements to the rewiring of mammalian
3D genomes and gene regulation
Mayank NK Choudhary1,2, #, Kara Quaid1,2,#, Xiaoyun Xing1,2, Heather Schmidt1,2, Ting Wang1,2,*
1 Center for Genome Sciences & Systems Biology, Washington University in St. Louis, St. Louis MO 63110, US... | 2022 | Widespread contribution of transposable elements to the rewiring of mammalian 3D genomes and gene regulation | 10.1101/2022.02.01.475239 | [
"Choudhary Mayank NK",
"Quaid Kara",
"Xing Xiaoyun",
"Schmidt Heather",
"Wang Ting"
] | creative-commons |
Metabolite interactions in the bacterial Calvin cycle
and implications for flux regulation
Emil Sporre1*, Jan Karlsen1*, Karen Schriever2, Johannes Asplund Samuelsson1, Markus
Janasch1, David Kotol1, Linnéa Strandberg1, Luise Zeckey1, Ilaria Piazza3, Per-Olof Syrén2,
Fredrik Edfors1, Elton P. Hudson1a.
1 Department of ... | 2022 | Metabolite interactions in the bacterial Calvin cycle and implications for flux regulation | 10.1101/2022.03.15.483797 | [
"Sporre Emil",
"Karlsen Jan",
"Schriever Karen",
"Samuelsson Johannes Asplund",
"Janasch Markus",
"Kotol David",
"Strandberg Linnéa",
"Zeckey Luise",
"Piazza Ilaria",
"Syrén Per-Olof",
"Edfors Fredrik",
"Hudson Elton P."
] | creative-commons |
1
Temporal instability of lake charr phenotypes: synchronicity of growth rates and
1
morphology linked to environmental variables?
2
3
Chavarie, L.1,2, Steve Voelker3, M.J. Hansen4, C.R., Bronte5, A.M., Muir6, M.S. Zimmerman7,
4
C.C. Krueger2
5
1University of British Columbia, Beaty Biodiversity Research ... | 2020 | Temporal instability of lake charr phenotypes: synchronicity of growth rates and morphology linked to environmental variables? | 10.1101/2020.08.13.249557 | [
"Chavarie L.",
"Voelker Steve",
"Hansen M.J.",
"Bronte C.R.",
"Muir A.M.",
"Zimmerman M.S.",
"Krueger C.C."
] | creative-commons |
1
Neuron-specific coding sequences are the most highly conserved in
the mammalian brain
Linhe Xu a, Suzana Herculano-Houzel *a,b,c
a Department of Psychological Sciences, Vanderbilt University
b Department of Biological Sciences, Vanderbilt University
c Vanderbilt Brain Institute, Vanderbilt University
*C... | 2021 | Neuron-specific coding sequences are the most highly conserved in the mammalian brain | 10.1101/2021.08.20.457147 | [
"Xu Linhe",
"Herculano-Houzel Suzana"
] | creative-commons |
1
Increased abundance of Cbl E3 ligases alters PDGFR signaling in recessive dystrophic
epidermolysis bullosa
Esther Martínez-Martínez1, Regine Tölle1, Julia Donauer2, Christine Gretzmeier2, Leena
Bruckner-Tuderman2, and Jörn Dengjel1
1Department of Biology, University of Fribourg, Switzerland
2Department of... | 2021 | Increased abundance of Cbl E3 ligases alters PDGFR signaling in recessive dystrophic epidermolysis bullosa | 10.1101/2021.05.10.443425 | [
"Martínez-Martínez Esther",
"Tölle Regine",
"Donauer Julia",
"Gretzmeier Christine",
"Bruckner-Tuderman Leena",
"Dengjel Jörn"
] | creative-commons |
1
Title: Contributions of the N-terminal intrinsically disordered region of the SARS-CoV-2
nucleocapsid protein to RNA-induced phase separation
Authors: Milan Zachrdla[1],*, Adriana Savastano[1],*, Alain Ibáñez de Opakua[1],* Maria-Sol
Cima-Omori[1] and Markus Zweckstetter[1,2]
Corresponding author: Prof. Dr... | 2022 | Contributions of the N-terminal intrinsically disordered region of the SARS-CoV-2 nucleocapsid protein to RNA-induced phase separation | 10.1101/2022.03.30.486418 | [
"Zachrdla Milan",
"Savastano Adriana",
"de Opakua Alain Ibáñez",
"Cima-Omori Maria-Sol",
"Zweckstetter Markus"
] | null |
1
1
2
Live imaging of avian embryos revealing a new head precursor map and the role for
3
the anterior mesendoderm in brain development
4
5
Koya Yoshihi1, Kagayaki Kato2, Hideaki Iida1,3, Machiko Teramoto1,3, Akihito
6
Kawamura1, Yusaku Watanabe1, Mitsuo Nunome4, Mikiharu Nakano4, Yoichi Matsuda4,
7 ... | 2020 | Live imaging of avian embryos revealing a new head precursor map and the role for the anterior mesendoderm in brain development | 10.1101/2020.08.22.262436 | [
"Yoshihi Koya",
"Kato Kagayaki",
"Iida Hideaki",
"Teramoto Machiko",
"Kawamura Akihito",
"Watanabe Yusaku",
"Nunome Mitsuo",
"Nakano Mikiharu",
"Matsuda Yoichi",
"Sato Yuki",
"Mizuno Hidenobu",
"Iwasato Takuji",
"Ishii Yasuo",
"Kondoh Hisato"
] | null |
USVSEG: A robust segmentation of rodents’ ultrasonic vocalization
Authors:
Ryosuke O. Tachibana1*
Kouta Kanno2
Shota Okabe3
Kohta I. Kobayasi4
Kazuo Okanoya1
* Corresponding author: rtachi@gmail.com
Affiliation:
1. Department of Life Sciences, Graduate School of Arts & Sciences, The University of
To... | 2019 | USVSEG: A robust segmentation of rodents’ ultrasonic vocalization | 10.1101/572743 | [
"Tachibana Ryosuke O.",
"Kanno Kouta",
"Okabe Shota",
"Kobayasi Kohta I.",
"Okanoya Kazuo"
] | creative-commons |
A DROSOPHILA CIRCUIT FOR HABITUATION OVERRIDE
1
2
Swati Trisal1,2,3, Marcia Aranha2, Ankita Chodankar 1,2, K. VijayRaghavan1 and Mani
3
Ramaswami1,2†.
4
1National Centre for Biological Sciences, TIFR, Bangalore 560065, India.
5
2Trinity College Institute of Neuroscience, School of Genetics and Microbiolog... | 2021 | A DROSOPHILA CIRCUIT FOR HABITUATION OVERRIDE | 10.1101/2021.09.11.459900 | [
"Trisal Swati",
"Aranha Marcia",
"Chodankar Ankita",
"VijayRaghavan K.",
"Ramaswami Mani"
] | null |
1
Non-helical Helicobacter pylori show altered gland colonization and elicit less gastric
1
pathology during chronic infection
2
3
Laura E. Martínez1,2, Valerie P. O’Brien2, Christina K. Leverich2, Sue E. Knoblaugh3, Nina R.
4
Salama1,2*
5
6
1Graduate Program in Pathobiology, Department of Global Healt... | 2018 | Non-helical show altered gland colonization and elicit less gastric pathology during chronic infection | 10.1101/505107 | [
"Martínez Laura E.",
"O’Brien Valerie P.",
"Leverich Christina K.",
"Knoblaugh Sue E.",
"Salama Nina R."
] | null |
“pizsa_manuscript” — 2019/4/26 — page 1 — #1
Bioinformatics
doi.10.1093/bioinformatics/xxxxxx
Advance Access Publication Date: Day Month Year
Manuscript Category
Structural Bioinformatics
A knowledge–based scoring function to assess the
stability of quaternary protein assemblies
Abhilesh S. Dhawanjewar 1,2,†, Ankit A. ... | 2019 | A knowledge–based scoring function to assess the stability of quaternary protein assemblies | 10.1101/562520 | [
"Dhawanjewar Abhilesh S.",
"Roy Ankit A.",
"Madhusudhan M.S."
] | creative-commons |
1
Perch selection of three species of kingfishers at the Pantanal wetland, Brazil
1
Laura C. Peinado1*, Zaida Ortega1
2
3
1Programa de Pós-Graduação em Ecologia e Conservação, Instituto de Biociências,
4
Universidade Federal do Mato Grosso do Sul, ZIP 79070-900, Campo Grande, Mato Grosso
5
do Sul, Brazil.... | 2020 | Perch selection of three species of kingfishers at the Pantanal wetland, Brazil | 10.1101/2020.09.21.306027 | [
"Peinado Laura C.",
"Ortega Zaida"
] | creative-commons |
1
Structural and mechanistic basis of reiterative transcription initiation
Yu Liu1,2, Jared T. Winkelman1,2,3, Libing Yu1,2, Chirangini Pukhrambam2,3, Emre Firlar4,
Jason T Kaelber4, Yu Zhang5, Bryce E. Nickels2,3,*, and Richard H. Ebright1,2,*
1 Department of Chemistry and Chemical Biology, Rutgers Universi... | 2021 | Structural and mechanistic basis of reiterative transcription initiation | 10.1101/2021.05.08.443277 | [
"Liu Yu",
"Winkelman Jared T.",
"Yu Libing",
"Pukhrambam Chirangini",
"Firlar Emre",
"Kaelber Jason T",
"Zhang Yu",
"Nickels Bryce E.",
"Ebright Richard H."
] | null |
1
The Nse5/6-like SIMC1-SLF2 Complex Localizes SMC5/6 to Viral Replication
1
Centers
2
3
Martina Oravcová1, Minghua Nie1, Nicola Zilio2, Shintaro Maeda3, Yasaman Jami-
4
Alahmadi4, Eros Lazzerini-Denchi5, James A. Wohlschlegel4, Helle D. Ulrich2,
5
Takanori Otomo3,6,7, and Michael N. Boddy1,7
6
7
1Dep... | 2022 | The Nse5/6-like SIMC1-SLF2 Complex Localizes SMC5/6 to Viral Replication Centers | 10.1101/2022.05.17.492321 | [
"Oravcová Martina",
"Nie Minghua",
"Zilio Nicola",
"Maeda Shintaro",
"Jami-Alahmadi Yasaman",
"Lazzerini-Denchi Eros",
"Wohlschlegel James A.",
"Ulrich Helle D.",
"Otomo Takanori",
"Boddy Michael N."
] | creative-commons |
1
Assessment of Plasmodium falciparum infection and fitness of
genetically modified Anopheles gambiae aimed at mosquito population
replacement
Sofia Tapanelli1, Maria Grazia Inghilterra1, Julia Cai1, James Philpott1, Paolo Capriotti1, Nikolai
Windbichler1 & George K. Christophides1,2 *
1Department of Life Scien... | 2021 | Assessment of infection and fitness of genetically modified aimed at mosquito population replacement | 10.1101/2021.11.01.466738 | [
"Tapanelli Sofia",
"Inghilterra Maria Grazia",
"Cai Julia",
"Philpott James",
"Capriotti Paolo",
"Windbichler Nikolai",
"Christophides George K."
] | creative-commons |
Detecting unreported recalls in memory
experiments
Francesco Fumarola1, Zhengqi He1, �Lukasz Ku´smierz1, Taro
Toyoizumi1,2,∗
1Laboratory for Neural Computation and Adaptation, RIKEN Center for Brain Science,
2-1 Hirosawa, Wako, Saitama 351-0198, Japan
2Department of Mathematical Informatics, Graduate School of Informat... | 2021 | Detecting unreported recalls in memory experiments | 10.1101/2021.01.26.428351 | [
"Fumarola Francesco",
"He Zhengqi",
"Kuśmierz Łukasz",
"Toyoizumi Taro"
] | null |
1
Microcolonies: a novel morphological form of pathogenic Mycoplasma spp
Irina V. Rakovskaya*, Svetlana A. Ermolaeva, Galina A. Levina, Olga I. Barkhatova, Andrey
Ya. Mukhachev, Svetlana G. Andreevskaya, Vladimir G. Zhukhovitsky, Luisa G. Gorina, Galina
G. Miller, Elena V. Sysolyatina
Gamaleya National Research Cente... | 2019 | Microcolonies: a novel morphological form of pathogenic spp | 10.1101/535559 | [
"Rakovskaya Irina V.",
"Ermolaeva Svetlana A.",
"Levina Galina A.",
"Barkhatova Olga I.",
"Mukhachev Andrey Ya.",
"Andreevskaya Svetlana G.",
"Zhukhovitsky Vladimir G.",
"Gorina Luisa G.",
"Miller Galina G.",
"Sysolyatina Elena V."
] | creative-commons |
Maast: genotyping thousands of microbial strains efficiently
Zhou Jason Shi1,2, Stephen Nayfach3,4 and Katherine S. Pollard1,2,5
1Chan Zuckerberg Biohub, San Francisco, CA, 2Gladstone Institutes, Data Science and
Biotechnology, San Francisco, CA, 3Department of Energy, Joint Genome Institute, Walnut
Creek, CA... | 2022 | Maast: genotyping thousands of microbial strains efficiently | 10.1101/2022.07.06.499075 | [
"Shi Zhou Jason",
"Nayfach Stephen",
"Pollard Katherine S."
] | creative-commons |
Maturation and interhemispheric asymmetry in neurite density and
orientation dispersion in early childhood
Dennis Dimonda,b,c,d*, Stella Heoa, Amanda Ipb,c,d,e,f,g, Christiane S. Rohrb,c,d, f, g , Ryann Tanseya,b,c,d, Kirk
Graffa,b,c,d, Thijs Dhollanderh,i, Robert E. Smithh,i, Catherine Lebelb,c,d,e,f, Deborah Dew... | 2019 | Maturation and interhemispheric asymmetry in neurite density and orientation dispersion in early childhood | 10.1101/852764 | [
"Dimond Dennis",
"Heo Stella",
"Ip Amanda",
"Rohr Christiane S.",
"Tansey Ryann",
"Graff Kirk",
"Dhollander Thijs",
"Smith Robert E.",
"Lebel Catherine",
"Dewey Deborah",
"Connelly Alan",
"Bray Signe"
] | creative-commons |
Rate of neuronal turnover in the healthy adult murine myenteric ganglia varies with
ganglia size
Anastazja M. Gorecki1, 2, Alpana Singh3, Chengxiu Zhang3, Rohin Gurumurthy3, Subhash
Kulkarni3#
1Perron Institute for Neurological and Translational Science, Nedlands, Australia.
2School of Biological Sciences, Univer... | 2022 | Rate of neuronal turnover in the healthy adult murine myenteric ganglia varies with ganglia size | 10.1101/2022.11.14.516462 | [
"Gorecki Anastazja M.",
"Singh Alpana",
"Zhang Chengxiu",
"Gurumurthy Rohin",
"Kulkarni Subhash"
] | creative-commons |
Reinforcement learning modeling reveals a reward-history-dependent strategy
underlying reversal learning in squirrel monkeys
Bilal A. Bari1, Megan J. Moerke2, Hank P. Jedema2, Devin P. Effinger3,
Jeremiah Y. Cohen1, Charles W. Bradberry2
1The Solomon H. Snyder Department of Neuroscience, Brain Science Institute, Kavli Ne... | 2021 | Reinforcement learning modeling reveals a reward-history-dependent strategy underlying reversal learning in squirrel monkeys | 10.1101/2021.05.05.442852 | [
"Bari Bilal A.",
"Moerke Megan J.",
"Jedema Hank P.",
"Effinger Devin P.",
"Cohen Jeremiah Y.",
"Bradberry Charles W."
] | creative-commons |
1
Title: Behavioural individuality determines infection risk in clonal ant colonies
1
2
Authors: Li, Z.1,2, Frank, E.T.3, Oliveira-Honorato, T.4, Azuma, F5., Bachmann, V2., Parker, D. J.6,
3
Schmitt, T.3, Economo, E.5, Ulrich, Y.1,2,4
4
5
1Max Planck Institute for Chemical Ecology, Jena, Germany
6
2Ins... | 2023 | Behavioural individuality determines infection risk in clonal ant colonies | 10.1101/2023.01.26.525341 | [
"Li Z.",
"Frank E.T.",
"Oliveira-Honorato T.",
"Azuma F.",
"Bachmann V.",
"Parker D. J.",
"Schmitt T.",
"Economo E.",
"Ulrich Y."
] | creative-commons |
Running head: I, WE, AND THEY
I, We, and They: A Linguistic and Narrative Exploration of the Authorship Process
Abigail Konopaskya, Bridget C. O’Brienb, Anthony R. Artino Jr.c, Erik W. Driessend,
Christopher J. Watlinge, and Lauren A. Maggioa
aUniformed Services University
bUniversity of California, San Franc... | 2021 | , and : A Linguistic and Narrative Exploration of the Authorship Process | 10.1101/2021.06.14.448236 | [
"Konopasky Abigail",
"O’Brien Bridget C.",
"Artino Anthony R.",
"Driessen Erik W.",
"Watling Christopher J.",
"Maggio Lauren A."
] | creative-commons |
1
Disruption of AtHAK/KT/KUP9 enhances plant cesium accumulation under low potassium supply.
1
Laure Genies1,2, Ludovic Martin1, Satomi Kanno1, Serge Chiarenza1, Loïc Carasco2, Virginie Camilleri3,
2
Alain Vavasseur1, Pascale Henner2, Nathalie Leonhardt1
3
1 Équipe Signalisation pour l’Adaptation des Végétaux ... | 2020 | Disruption of enhances plant cesium accumulation under low potassium supply | 10.1101/2020.02.05.931527 | [
"Genies Laure",
"Martin Ludovic",
"Kanno Satomi",
"Chiarenza Serge",
"Carasco Loïc",
"Camilleri Virginie",
"Vavasseur Alain",
"Henner Pascale",
"Leonhardt Nathalie"
] | creative-commons |
Exploring the upper pH limits of nitrite oxidation: diversity, ecophysiology, and adaptive
traits of haloalkalitolerant Nitrospira
Author names: Anne Daebeler1, Katharina Kitzinger1,§, Hanna Koch1#, Craig W. Herbold1,
Michaela Steinfeder1, Jasmin Schwarz1 , Thomas Zechmeister2, Søren M. Karst3, Mads
Albertsen3... | 2020 | Exploring the upper pH limits of nitrite oxidation: diversity, ecophysiology, and adaptive traits of haloalkalitolerant | 10.1101/2020.03.05.977850 | [
"Daebeler Anne",
"Kitzinger Katharina",
"Koch Hanna",
"Herbold Craig W.",
"Steinfeder Michaela",
"Schwarz Jasmin",
"Zechmeister Thomas",
"Karst Søren M.",
"Albertsen Mads",
"Nielsen Per H.",
"Wagner Michael",
"Daims Holger"
] | null |
Synthesizing VERDICT maps from standard
DWI data using GANs
Eleni Chiou1,2, Vanya Valindria1,2, Francesco Giganti3,4, Shonit Punwani5,
Iasonas Kokkinos2, and Eleftheria Panagiotaki1,2
1 Centre for Medical Image Computing, UCL, London, UK
2 Department of Computer Science, UCL, London, UK
3 Department of Radiology, UCLH ... | 2021 | Synthesizing VERDICT maps from standard DWI data using GANs | 10.1101/2021.02.16.431521 | [
"Chiou Eleni",
"Valindria Vanya",
"Giganti Francesco",
"Punwani Shonit",
"Kokkinos Iasonas",
"Panagiotaki Eleftheria"
] | creative-commons |
Corynebacterium matruchotii fitness enhancement of adjacent streptococci by multiple
1
mechanisms
2
3
4
Authors: 1Eric Almeida*, 2Surendra Puri*, 2Subhashini Elangovan, 2Jiyeon Kim, 1Matthew
5
Ramsey**
6
7
8
* indicates authors contributed equally
9
10
11
Institutional Affiliations: 1The Un... | 2022 | fitness enhancement of adjacent streptococci by multiple mechanisms | 10.1101/2022.05.09.491233 | [
"Almeida Eric",
"Puri Surendra",
"Elangovan Subhashini",
"Kim Jiyeon",
"Ramsey Matthew"
] | null |
Differential expression of glycosyltransferases identified through comprehensive pan-cancer
analysis
Authors:
Hayley M Dingerdissen1*, Jeet Vora1, Edmund Cauley1, Amanda Bell1, Charles Hadley King1,2, Raja
Mazumder1,2
1Department of Biochemistry and Molecular Medicine, The George Washington University,
Washingt... | 2021 | Differential expression of glycosyltransferases identified through comprehensive pan-cancer analysis | 10.1101/2021.06.15.448506 | [
"Dingerdissen Hayley M",
"Vora Jeet",
"Cauley Edmund",
"Bell Amanda",
"King Charles Hadley",
"Mazumder Raja"
] | creative-commons |
C4 Grasses Employ Various Strategies to Acclimate Rubisco Activase to Heat Stress.
1
Sarah C Stainbrook*1, Lindsey N Aubuchon1, Amanda Chen2, Emily Johnson2, Audrey Si2, Laila
2
Walton2, Angela Ahrendt2, Joseph Jez1
3
1 Department of Biology, Washington University in St Louis, St Louis, MO
4
2 Illinois Mathemat... | 2022 | C Grasses Employ Various Strategies to Acclimate Rubisco Activase to Heat Stress | 10.1101/2022.08.24.505184 | [
"Stainbrook Sarah C",
"Aubuchon Lindsey N",
"Chen Amanda",
"Johnson Emily",
"Si Audrey",
"Walton Laila",
"Ahrendt Angela",
"Jez Joseph"
] | null |
PTSD AND THE SOCIAL BRAIN
1/39
Posttraumatic Stress Disorder and the Social Brain: Affect-Related
Disruption of the Default and Mirror Networks
Kevin M. Tan, Lisa J. Burklund, Michelle G. Craske, Matthew D. Lieberman
University of California, Los Angeles
Department of Psychology
... | 2019 | Posttraumatic Stress Disorder and the Social Brain: Affect-Related Disruption of the Default and Mirror Networks | 10.1101/527176 | [
"Tan Kevin M.",
"Burklund Lisa J.",
"Craske Michelle G.",
"Lieberman Matthew D."
] | null |
Experimental warming influences species abundances in a Drosophila
1
host community through direct effects on species performance rather
2
than altered competition and parasitism
3
4
Mélanie Thierry* 1, 2, Nicholas A. Pardikes 2, Chia-Hua Lue 2, Owen T. Lewis 3 & Jan Hrček 1, 2
5
6
1 University of South B... | 2020 | Experimental warming influences species abundances in a host community through direct effects on species performance rather than altered competition and parasitism | 10.1101/2020.12.22.423937 | [
"Thierry Mélanie",
"Pardikes Nicholas A.",
"Lue Chia-Hua",
"Lewis Owen T.",
"Hrček Jan"
] | creative-commons |
1
Relative pitch representations and invariance to timbre
Malinda J. McPhersona,b,c*, Josh H. McDermotta,b,c,d
a Department of Brain and Cognitive Sciences, MIT, Cambridge, MA, 02139
b Program in Speech and Hearing Biosciences and Technology, Harvard University, Boston, MA 02115
c McGovern Institute for Brai... | 2022 | Relative pitch representations and invariance to timbre | 10.1101/2022.01.13.476197 | [
"McPherson Malinda J.",
"McDermott Josh H."
] | null |
State dependence of neural networks on past history and stimulus presentation in
Caenorhabditis elegans
Zachary T. Cecere1,2,3, Eviatar Yemini4, Tatyana O. Sharpee1,3, and Sreekanth H. Chalasani1,2*
1Neurosciences Graduate Program, University of California, San Diego, La Jolla, CA, USA.
2Molecular Neurobiology Labo... | 2021 | State dependence of neural networks on past history and stimulus presentation in | 10.1101/2021.04.09.439242 | [
"Cecere Zachary T.",
"Yemini Eviatar",
"Sharpee Tatyana O.",
"Chalasani Sreekanth H."
] | null |
Initial
insights
into
the
genetic
epidemiology
of
SARS-CoV-2 isolates from Kerala suggest local spread
from limited introductions
Chandni Radhakrishnan1,$, Mohit Kumar Divakar2,3,$, Abhinav Jain2,3,$, Prasanth Viswanathan1, Rahul C.
Bhoyar2, Bani Jolly2,... | 2020 | Initial insights into the genetic epidemiology of SARS-CoV-2 isolates from Kerala suggest local spread from limited introductions | 10.1101/2020.09.09.289892 | null | creative-commons |
Development of an amplicon nanopore sequencing strategy for detection of mutations
1
conferring intermediate resistance to vancomycin in Staphylococcus aureus strains
2
3
Abraham G. Moller1,2, Robert A. Petit III1,3, Michelle H. Davis1, and Timothy D. Read1
4
5
1Division of Infectious Diseases, Department o... | 2022 | Development of an amplicon nanopore sequencing strategy for detection of mutations conferring intermediate resistance to vancomycin in strains | 10.1101/2022.07.31.502206 | [
"Moller Abraham G.",
"Petit Robert A.",
"Davis Michelle H.",
"Read Timothy D."
] | creative-commons |
BioRxiv
12 December 2019
RamaNet: Computational de novo helical protein
backbone design using a long short-term memory
generative adversarial neural network
Sari Sabban1*, Mikhail Markovsky2
Abstract
The ability to perform de novo protein design will allow researchers to expand the pool and variety of available
protein... | 2019 | RamaNet: Computational helical protein backbone design using a long short-term memory generative adversarial neural network | 10.1101/671552 | [
"Sabban Sari",
"Markovsky Mikhail"
] | creative-commons |
1
Multidimensional Profiling of Drug-Treated Cells by
Imaging Mass Cytometry
Alexandre Bouzekri, Amanda Esch, Olga Ornatsky
Fluidigm Canada Inc., 1380 Rodick Road, Markham, Ontario, L3R 4G5, Canada
Proteomics R&D Department
Running Title: Multidimensional drug profiling by Imaging Mass Cytometry
Correspondin... | 2019 | Multidimensional Profiling of Drug-Treated Cells by Imaging Mass Cytometry | 10.1101/549592 | [
"Bouzekri Alexandre",
"Esch Amanda",
"Ornatsky Olga"
] | null |
Title: Allosteric activation of cell wall synthesis during bacterial growth
Authors: Irina Shlosman1, Elayne M. Fivenson2, Morgan S.A. Gilman1, Tyler A. Sisley2,
Suzanne Walker2, Thomas G. Bernhardt2,3, Andrew C. Kruse1†, Joseph J. Loparo1†‡
Affiliations:
1Department of Biological Chemistry and Molecular P... | 2022 | Allosteric activation of cell wall synthesis during bacterial growth | 10.1101/2022.11.07.515454 | [
"Shlosman Irina",
"Fivenson Elayne M.",
"Gilman Morgan S.A.",
"Sisley Tyler A.",
"Walker Suzanne",
"Bernhardt Thomas G.",
"Kruse Andrew C.",
"Loparo Joseph J."
] | null |
1
The Olfm4-defined human neutrophil subsets differ in proteomic profile in septic shock
1
2
Hans Lundquista, Henrik Anderssonb, Michelle S. Chewb, Jyotirmoy Dasc, Maria V. Turkinad,
3
Amanda Welina
4
5
aDivision of Inflammation and Infection, Department of Biomedical and Clinical Sciences,
6
Faculty... | 2022 | The Olfm4-defined human neutrophil subsets differ in proteomic profile in septic shock | 10.1101/2022.03.08.483264 | [
"Lundquist Hans",
"Andersson Henrik",
"Chew Michelle S.",
"Das Jyotirmoy",
"Turkina Maria V.",
"Welin Amanda"
] | null |
1
HIGHER TEMPERATURES GENERICALLY FAVOR SLOWER-GROWING
BACTERIAL SPECIES IN MULTISPECIES COMMUNITIES
Simon Lax*, Clare I. Abreu*, & Jeff Gore
Department of Physics, Massachusetts Institute of Technology, Cambridge, MA, USA
Correspondence to S.L. (simonlax@mit.edu) and J.G. (gore@mit.edu)
*S.L & C.I.A. made e... | 2019 | Higher Temperatures Generically Favor Slower-Growing Bacterial Species in Multispecies Communities | 10.1101/689380 | [
"Lax Simon",
"Abreu Clare I.",
"Gore Jeff"
] | creative-commons |
SIRT5 is a proviral factor that interacts with SARS-CoV-2 Nsp14
protein
Authors
Marius Walter1*, Irene P Chen2,3, Albert Vallejo-Gracia2,3, Ik-Jung Kim1, Olga Bielska1, Victor
L Lam3, Jennifer M Hayashi2,3, Andrew Cruz1, Samah Shah1, John D Gross3,4, Nevan J
Krogan2,3,4,5, Birgit Schilling1, Melanie Ott2,3, Eric Verdin... | 2022 | SIRT5 is a proviral factor that interacts with SARS-CoV-2 Nsp14 protein | 10.1101/2022.01.04.474979 | [
"Walter Marius",
"Chen Irene P",
"Vallejo-Gracia Albert",
"Kim Ik-Jung",
"Bielska Olga",
"Lam Victor L",
"Hayashi Jennifer M",
"Cruz Andrew",
"Shah Samah",
"Gross John D",
"Krogan Nevan J",
"Schilling Birgit",
"Ott Melanie",
"Verdin Eric"
] | creative-commons |
Timing gone awry: distinct tumour suppressive
and oncogenic roles of the circadian clock and
crosstalk with hypoxia signalling in diverse
malignancies
Wai Hoong Chang1 and Alvina G. Lai1,�
1Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford, OX3 7FZ, United Kingdom
The circadian clock governs... | 2019 | Timing gone awry: distinct tumour suppressive and oncogenic roles of the circadian clock and crosstalk with hypoxia signalling in diverse malignancies | 10.1101/556878 | [
"Chang Wai Hoong",
"Lai Alvina G."
] | creative-commons |
1
Respiratory coupling between prefrontal cortex and
hippocampus of rats anesthetized with urethane in theta
and non-theta states
Rola Mofleh and Bernat Kocsis
Dept Psychiatry at BIDMC, Harvard Medical School
Correspondence: bkocsis@hms.harvard.edu
Abstract
Respiratory
modulation
of
forebrain
activi... | 2021 | Respiratory coupling between prefrontal cortex and hippocampus of rats anesthetized with urethane in theta and non-theta states | 10.1101/2021.03.31.437980 | [
"Mofleh Rola",
"Kocsis Bernat"
] | creative-commons |
1
Structural heterogeneity of the microtubule lattice
Charlotte Guyomar1, Siou Ku1, John Heumann2, Clément Bousquet1, Gabriel Guilloux1, Natacha
Gaillard3, Claire Heichette1, Laurence Duchesne1, Michel O. Steinmetz3,4, Romain Gibeaux1,
Denis Chrétien1*
Affiliations:
5
1Univ Rennes, CNRS, IGDR (Institut de ... | 2021 | Structural heterogeneity of the microtubule lattice | 10.1101/2021.07.14.452321 | [
"Guyomar Charlotte",
"Ku Siou",
"Heumann John",
"Bousquet Clément",
"Guilloux Gabriel",
"Gaillard Natacha",
"Heichette Claire",
"Duchesne Laurence",
"Steinmetz Michel O.",
"Gibeaux Romain",
"Chrétien Denis"
] | creative-commons |
1
Andean uplift, drainage basin formation, and the evolution of riverweeds (Marathrum,
1
Podostemaceae) in northern South America
2
3
4
Ana M. Bedoya, Adam D. Leaché and Richard G. Olmstead
5
Department of Biology and Burke Museum, University of Washington, Seattle, WA, United States
6
7
Author for ... | 2020 | Andean uplift, drainage basin formation, and the evolution of riverweeds (, Podostemaceae) in northern South America | 10.1101/2020.11.13.382200 | [
"Bedoya Ana M.",
"Leaché Adam D.",
"Olmstead Richard G."
] | creative-commons |
CoVar: A generalizable machine learning approach to identify
the coordinated regulators driving variational gene expression
Satyaki Roy1*, 1Shehzad Z. Sheikh2, and Terrence S. Furey3
1Department of Genetics, University of North Carolina, Chapel Hill, USA
2Departments of Medicine and Genetics, Center for Gastr... | 2023 | CoVar: A generalizable machine learning approach to identify the coordinated regulators driving variational gene expression | 10.1101/2023.01.12.523808 | [
"Roy Satyaki",
"Sheikh Shehzad Z.",
"Furey Terrence S."
] | null |
1
Calling differential DNA methylation at cell-type
resolution:
avoiding
misconceptions
and
promoting best practices
Han Jing 1, Shijie C. Zheng 1,2 , Charles E. Breeze 3 , Stephan Beck 4 and Andrew E.
Teschendorff 1,4,*
1. CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Comp... | 2021 | Calling differential DNA methylation at cell-type resolution: avoiding misconceptions and promoting best practices | 10.1101/2021.02.28.433245 | [
"Jing Han",
"Zheng Shijie C.",
"Breeze Charles E.",
"Beck Stephan",
"Teschendorff Andrew E."
] | creative-commons |
1
Event segmentation reveals working memory forgetting rate
Anna Jafarpour 1,*, Elizabeth A Buffalo 1,2, Robert T Knight 3,4, Anne GE Collins 3,4
1- University of Washington, Department of Physiology and Biophysics, Seattle, WA
2- National Primate Center, University of Washington, Seattle, WA
3- University of Ca... | 2021 | Event segmentation reveals working memory forgetting rate | 10.1101/571380 | [
"Jafarpour Anna",
"Buffalo Elizabeth A",
"Knight Robert T",
"Collins Anne GE"
] | null |
1
Chronic in vivo STED nanoscopy uncovers multiple drivers of shape
volatility in stable cortical spines
Heinz Steffens1,2, Alexander C. Mott1,2, Siyuan Li3,4, Waja Wegner1,2, Pavel Švehla3,4, Vanessa W. Y.
Kan3,4, Fred Wolf2,5, Sabine Liebscher3,4,6,* and Katrin I. Willig1,2,7,*,#
1Optical Nanoscopy in Neur... | 2020 | Chronic STED nanoscopy uncovers multiple drivers of shape volatility in stable cortical spines | 10.1101/2020.09.21.306902 | [
"Steffens Heinz",
"Mott Alexander C.",
"Li Siyuan",
"Wegner Waja",
"Švehla Pavel",
"Kan Vanessa W. Y.",
"Wolf Fred",
"Liebscher Sabine",
"Willig Katrin I."
] | creative-commons |
1
A generalized kinetic model describes ion-permeation mechanisms in
1
various ion channels
2
3
Di Wua
4
Department of Physiology and Neurobiology, School of Life Sciences, Fudan
5
University, Shanghai 200438, P. R. China
6
7
8
9
aElectronic mail: diwu@fudan.edu... | 2021 | A generalized kinetic model describes ion-permeation mechanisms in various ion channels | 10.1101/2021.05.08.443239 | null | null |
Detecting Cell Contact-dependent Gene Expression from Spatial Transcriptomics Data
Hyobin Kim1*, Cecilia Lövkvist1*, Patrick Martin1, Junil Kim2 and Kyoung Jae Won1**
1 Biotech Research and Innovation Centre (BRIC), University of Copenhagen, Ole Maaløes Vej 5, 2200
Copenhagen N, Denmark
2 School of Systems Bi... | 2022 | Detecting Cell Contact-dependent Gene Expression from Spatial Transcriptomics Data | 10.1101/2022.02.16.480673 | [
"Kim Hyobin",
"Lövkvist Cecilia",
"Martin Patrick",
"Kim Junil",
"Won Kyoung Jae"
] | creative-commons |
1
Title: Rare genetic variation and balanced polymorphisms are important for survival in global
1
change conditions
2
3
Authors: Reid S. Brennan1,2, April D. Garrett1, Kaitlin E. Huber, Heidi Hargarten, Melissa H.
4
Pespeni2
5
6
Affiliation: Department of Biology, University of Vermont, Burlington, VT,... | 2019 | Rare genetic variation and balanced polymorphisms are important for survival in global change conditions | 10.1101/422261 | [
"Brennan Reid S.",
"Garrett April D.",
"Huber Kaitlin E.",
"Hargarten Heidi",
"Pespeni Melissa H."
] | creative-commons |
Type I and Type III IFN Restrict SARS-CoV-2 Infection of Human Airway Epithelial
1
Cultures
2
3
Abigail Vanderheidena,b,c, Philipp Ralfsb,c,d, Tatiana Chirkovaa,b, Amit A. Upadhyayb,c,e,
4
Matthew G. Zimmermana,b,c, Shamika Bedoyad, Hadj Aouedb, Gregory M. Tharpb,
5
Kathryn L. Pellegrinib, Anice C. Lowend, V... | 2020 | Type I and Type III IFN Restrict SARS-CoV-2 Infection of Human Airway Epithelial Cultures | 10.1101/2020.05.19.105437 | [
"Vanderheiden Abigail",
"Ralfs Philipp",
"Chirkova Tatiana",
"Upadhyay Amit A.",
"Zimmerman Matthew G.",
"Bedoya Shamika",
"Aoued Hadj",
"Tharp Gregory M.",
"Pellegrini Kathryn L.",
"Lowen Anice C.",
"Menachery Vineet D.",
"Anderson Larry J.",
"Grakoui Arash",
"Bosinger Steven E.",
"Suth... | null |
Yperman et al.
RESEARCH ARTICLE
Machine Learning Analysis of Motor Evoked
Potential Time Series to Predict Disability
Progression in Multiple Sclerosis
Jan Yperman1*, Thijs Becker1, Dirk Valkenborg1, Veronica Popescu2,1, Niels Hellings1, Bart Van
Wijmeersch2,1, and Liesbet M Peeters1
Abstract
Background: Evoked potenti... | 2019 | Machine Learning Analysis of Motor Evoked Potential Time Series to Predict Disability Progression in Multiple Sclerosis | 10.1101/772996 | [
"Yperman Jan",
"Becker Thijs",
"Valkenborg Dirk",
"Popescu Veronica",
"Hellings Niels",
"Wijmeersch Bart Van",
"Peeters Liesbet M"
] | creative-commons |
Protein complex prediction using Rosetta, AlphaFold, and mass spectrometry covalent
labeling
Zachary C. Drake,1 Justin T. Seffernick,1 and Steffen Lindert1,*
1Department of Chemistry and Biochemistry, Ohio State University, Columbus, OH, 43210
* Correspondence to:
Department of Chemistry and Biochemistry, O... | 2022 | Protein complex prediction using Rosetta, AlphaFold, and mass spectrometry covalent labeling | 10.1101/2022.04.30.490108 | [
"Drake Zachary C.",
"Seffernick Justin T.",
"Lindert Steffen"
] | null |
1
Fat Body Phospholipid State Dictates Hunger Driven Feeding Behavior
Kevin P. Kelly*1, Mroj Alassaf*1, Camille E. Sullivan1, Ava E. Brent1, Zachary H. Goldberg1, Michelle E.
Poling1, Julien Dubrulle2, Akhila Rajan#1
*Equal Contribution #Corresponding and Lead Author: akhila@fredhutch.org
1Basic Sciences Divisi... | 2021 | Fat Body Phospholipid State Dictates Hunger Driven Feeding Behavior | 10.1101/2021.12.16.472854 | [
"Kelly Kevin P.",
"Alassaf Mroj",
"Sullivan Camille E.",
"Brent Ava E.",
"Goldberg Zachary H.",
"Poling Michelle E.",
"Dubrulle Julien",
"Rajan Akhila"
] | creative-commons |
1
A rapid method to quantify small-scale vegetation patch structure to
1
complement conventional quadrat surveys
2
3
Running title: Within-quadrat surveys of small-scale patches
4
5
6
Liam Butler1, Roy A. Sanderson1
7
1 School of Natural and Environmental Science, Newcastle University, Newcastle Upo... | 2021 | A rapid method to quantify small-scale vegetation patch structure to complement conventional quadrat surveys | 10.1101/2021.05.12.443830 | [
"Butler Liam",
"Sanderson Roy A."
] | creative-commons |
1
FRET monitoring of transcription factor activities in living bacteria
Pengchao Wang1, 2, Guangming Zhang1, Zeling Xu1§, Zhe Chen1, Xiaohong Liu3, Chenyin Wang1,
Chaogu Zheng1, Jiangyun Wang3*, Hongmin Zhang2*, Aixin Yan1*
1 School of Biological Sciences, The University of Hong Kong, Pokfulam Road, Hong Kong S... | 2022 | FRET monitoring of transcription factor activities in living bacteria | 10.1101/2022.01.14.476424 | [
"Wang Pengchao",
"Zhang Guangming",
"Xu Zeling",
"Chen Zhe",
"Liu Xiaohong",
"Wang Chenyin",
"Zheng Chaogu",
"Wang Jiangyun",
"Zhang Hongmin",
"Yan Aixin"
] | creative-commons |
Title:
Industrialization is associated with elevated rates of horizontal gene transfer in the human
microbiome
Authors:
Mathieu Groussin*1,2,3, Mathilde Poyet*1,2,3, Ainara Sistiaga4,5, Sean M. Kearney1,2, Katya
Moniz1,2, Mary Noel6, Jeff Hooker6, S... | 2020 | Industrialization is associated with elevated rates of horizontal gene transfer in the human microbiome | 10.1101/2020.01.28.922104 | [
"Groussin Mathieu",
"Poyet Mathilde",
"Sistiaga Ainara",
"Kearney Sean M.",
"Moniz Katya",
"Noel Mary",
"Hooker Jeff",
"Gibbons Sean M.",
"Segurel Laure",
"Froment Alain",
"Said Mohamed Rihlat",
"Fezeu Alain",
"Juimo Vanessa A.",
"Girard Catherine",
"Nguyen Le Thanh Tu",
"Shapiro B. Je... | null |
Transcriptome analysis reveals high tumor heterogeneity with
respect to re-activation of stemness and proliferation
programs
Artem Baranovsky1,2, Timofei Ivanov1, Marina Granovskaya3, Dmitri Papatsenko1,†,
Dmitri Pervouchine1,*
1 Center of Life Sciences, Skolkovo Institute of Science and Technology, Moscow, Russia
2 Be... | 2021 | Transcriptome analysis reveals high tumor heterogeneity with respect to re-activation of stemness and proliferation programs | 10.1101/2021.09.02.458724 | [
"Baranovsky Artem",
"Ivanov Timofei",
"Granovskaya Marina",
"Papatsenko Dmitri",
"Pervouchine Dmitri"
] | creative-commons |
1
Decoding G0 somatic mutants through deep phenotyping and mosaic pattern
analysis in the zebrafish skeleton
Running Title: Decoding Somatic Phenotypes
Claire J. Watson1,2,7, Adrian T. Monstad-Rios1,2, Rehaan M. Bhimani1,2, Charlotte
Gistelinck1,4, Andy Willaert4, Paul Coucke4, Yi-Hsiang Hsu5,6, Ronald Y. Kwon... | 2019 | Decoding G0 somatic mutants through deep phenotyping and mosaic pattern analysis in the zebrafish skeleton | 10.1101/466185 | [
"Watson Claire J.",
"Monstad-Rios Adrian T.",
"Bhimani Rehaan M.",
"Gistelinck Charlotte",
"Willaert Andy",
"Coucke Paul",
"Hsu Yi-Hsiang",
"Kwon Ronald Y."
] | creative-commons |
1
Microglia protect fungi against copper starvation and promote
1
brain infection
2
Sally H. Mohamed1, Man Shun Fu1, Sofia Hain1, Alanoud Alselami1, Eliane Vanhoffelen2,
3
Yanjian Li3, Ebrima Bojang1, Robert Lukande4, Elizabeth R. Ballou5, Robin C. May6, Chen
4
Ding3, Greetje Vande Velde2, Rebecca A. Drummon... | 2022 | Microglia protect fungi against copper starvation and promote brain infection | 10.1101/2022.09.07.506901 | [
"Mohamed Sally H.",
"Fu Man Shun",
"Hain Sofia",
"Alselami Alanoud",
"Vanhoffelen Eliane",
"Li Yanjian",
"Bojang Ebrima",
"Lukande Robert",
"Ballou Elizabeth R.",
"May Robin C.",
"Ding Chen",
"Velde Greetje Vande",
"Drummond Rebecca A."
] | null |
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