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1
Epigenetic bookmarking of H2S exposure in Caenorhabditis elegans
Emily M. Fawcett1,2, Jenna K. Johnson3, Chris Braden1, Ellie Garcia1, and Dana L. Miller1,2*
1University of Washington School of Medicine, Department of Biochemistry and 2Graduate
Program in Molecular and Cellular Biology, Seattle, WA, and 3Departme... | 2019 | Epigenetic bookmarking of HS exposure in | 10.1101/619734 | [
"Fawcett Emily M.",
"Johnson Jenna K.",
"Braden Chris",
"Garcia Ellie",
"Miller Dana L."
] | creative-commons |
1
From breast cancer cell homing to the onset of early bone metastasis: dynamic
bone (re)modeling as a driver of osteolytic disease
Sarah A. E. Young1, Anna-Dorothea Heller1, Daniela S. Garske1, Maximilian Rummler1,2, Victoria Qian1,
Agnes Ellinghaus3, Georg N. Duda3, Bettina M. Willie2, Anika Grüneboom4, Amaia... | 2023 | From breast cancer cell homing to the onset of early bone metastasis: dynamic bone (re)modeling as a driver of osteolytic disease | 10.1101/2023.01.24.525352 | [
"Young Sarah A. E.",
"Heller Anna-Dorothea",
"Garske Daniela S.",
"Rummler Maximilian",
"Qian Victoria",
"Ellinghaus Agnes",
"Duda Georg N.",
"Willie Bettina M.",
"Grüneboom Anika",
"Cipitria Amaia"
] | null |
1
1
Characterisation of Metarhizium majus (Hypocreales:
2
Clavicipitaceae) isolated from the Western Cape province,
3
South Africa
4
5
Letodi L. Mathulwe1, Karin Jacobs2, Antoinette P. Malan1*, Klaus Birkhofer3, Matthew F.
6
Addison1, Pia Addison1
7
8
1 Department of Conservation Ecology and Entomology, Faculty of A... | 2020 | Characterisation of (Hypocreales: Clavicipitaceae) isolated from the Western Cape province, South Africa | 10.1101/2020.10.07.329532 | [
"Mathulwe Letodi L.",
"Jacobs Karin",
"Malan Antoinette P.",
"Birkhofer Klaus",
"Addison Matthew F.",
"Addison Pia"
] | creative-commons |
1
A population based expression atlas provides insights into disease resistance and other physiological traits
1
in cassava (Manihot esculenta Crantz)
2
3
Alex C. Ogbonna1,2*, Punna Ramu1, Esuma Williams3, Leah Nandudu1,3, Nicolas Morales1, Adrian Powell2, Robert Kawuki3,
4
Guillaume Bauchet2, Jean-Luc Jannin... | 2021 | A population based expression atlas provides insights into disease resistance and other physiological traits in cassava ( Crantz) | 10.1101/2021.09.23.461500 | [
"Ogbonna Alex C.",
"Ramu Punna",
"Williams Esuma",
"Nandudu Leah",
"Morales Nicolas",
"Powell Adrian",
"Kawuki Robert",
"Bauchet Guillaume",
"Jannink Jean-Luc",
"Mueller Lukas A."
] | creative-commons |
1
Estimates of cortical column orientation improve
MEG source inversion
James J Bonaiuto1,2, Fardin Afdideh2,3, Maxime Ferez2,3, Konrad Wagstyl4,5, Jérémie Mattout2,3, Mathilde
Bonnefond2,3, Gareth R Barnes5*, Sven Bestmann5,6*
*: joint last author
1) Institut des Sciences Cognitives Marc Jeannerod, CNRS ... | 2019 | Estimates of cortical column orientation improve MEG source inversion | 10.1101/810267 | [
"Bonaiuto James J",
"Afdideh Fardin",
"Ferez Maxime",
"Wagstyl Konrad",
"Mattout Jérémie",
"Bonnefond Mathilde",
"Barnes Gareth R",
"Bestmann Sven"
] | creative-commons |
1
2
3
A novel Mn-dependent peroxidase contributes to tardigrade anhydrobiosis
4
family of Mn-dependent peroxidase is a critical component for anhydrobiotic survival in
5
Yuki Yoshida1,2, Tadashi Satoh3, Chise Ota4, Sae Tanaka4, Daiki D. Horikawa1,2, Masaru Tomita1,2,
6
Koichi Kato3,4, Kazuharu Arakawa1... | 2020 | A novel Mn-dependent peroxidase contributes to tardigrade anhydrobiosis | 10.1101/2020.11.06.370643 | [
"Yoshida Yuki",
"Satoh Tadashi",
"Ota Chise",
"Tanaka Sae",
"Horikawa Daiki D.",
"Tomita Masaru",
"Kato Koichi",
"Arakawa Kazuharu"
] | creative-commons |
Structural basis for reduced ribosomal A-site
fidelity in response to P-site codon-anticodon
mismatches
Ha An Nguyen1,2, Eric D. Hoffer2,3, Crystal E. Fagan2,3,
Tatsuya Maehigashi1,2 and Christine M. Dunham1,2*
1Department of Chemistry, Emory University, Atlanta, GA USA
2Emory Antibiotic Resist... | 2023 | Structural basis for reduced ribosomal A-site fidelity in response to P-site codon-anticodon mismatches | 10.1101/2023.01.28.526049 | [
"Nguyen Ha An",
"Hoffer Eric D.",
"Fagan Crystal E.",
"Maehigashi Tatsuya",
"Dunham Christine M."
] | creative-commons |
FAIRsoft - A practical implementation of
FAIR principles for research software
Eva Martín del Pico , Josep Lluis Gelpi*, Salvador Capella-Gutiérrez *
Abstract
Introduction
Rendering FAIR principles for research software into measurable indicators
Proposal for a FAIRsoft scoring system
Measurement of software FAIRness w... | 2022 | FAIRsoft - A practical implementation of FAIR principles for research software | 10.1101/2022.05.04.490563 | [
"del Pico Eva Martín",
"Gelpi Josep Lluis",
"Capella-Gutiérrez Salvador"
] | creative-commons |
Cerebral hemodynamics: a mathematical model
including autoregulation, baroreflex and extracranial
peripheral circulation
Francisco A. Garcia1,*, Deusdedit L. S. Junior1,+, and Andreas Linninger2
1Division of Data Science, brain4care, S˜ao Carlos, State of S˜ao Paulo, Brazil.
2Laboratory for Product and Process Design (L... | 2021 | Cerebral hemodynamics: a mathematical model including autoregulation, baroreflex and extracranial peripheral circulation | 10.1101/2021.06.11.448061 | [
"Garcia Francisco A.",
"Spavieri Junior Deusdedit Lineu",
"Linninger Andreas"
] | creative-commons |
RippleNet: A Recurrent Neural Network for Sharp
Wave Ripple (SPW-R) Detection
Espen Hagen1,*, Anna R. Chambers2, Gaute T. Einevoll1,3, Klas H. Pettersen4, Rune Enger5, and
Alexander J. Stasik1,**
1Dept. of Physics, Faculty of Mathematics and Natural Sciences, University of Oslo, Oslo, Norway
2Section of Physiology, Dep... | 2020 | RippleNet: A Recurrent Neural Network for Sharp Wave Ripple (SPW-R) Detection | 10.1101/2020.05.11.087874 | [
"Hagen Espen",
"Chambers Anna R.",
"Einevoll Gaute T.",
"Pettersen Klas H.",
"Enger Rune",
"Stasik Alexander J."
] | creative-commons |
Temporal regularity and stimulus control in multiple fixed interval schedules
Estela B. Nepomoceno1, André M. Cravo1, Marcelo B. Reyes1 & Marcelo S. Caetano1,2*
1Center for Mathematics, Computing and Cognition, Universidade Federal do ABC (UFABC),
São Bernardo do Campo, SP, Brazil.
2Instituto Nacional de Ciência ... | 2019 | Temporal regularity and stimulus control in multiple fixed interval schedules | 10.1101/695353 | [
"Nepomoceno Estela B.",
"Cravo André M.",
"Reyes Marcelo B.",
"Caetano Marcelo S."
] | creative-commons |
1
Contrasting resistance and resilience to light variation of the coupled oxic and anoxic
1
components of an experimental microbial ecosystem
2
Marcel Suleiman, Frank Pennekamp, Yves Choffat and Owen L. Petchey
3
Department of Evolutionary Biology and Environmental Studies, University of Zurich
4
Correspondi... | 2021 | Contrasting resistance and resilience to light variation of the coupled oxic and anoxic components of an experimental microbial ecosystem | 10.1101/2021.08.13.456201 | [
"Suleiman Marcel",
"Pennekamp Frank",
"Choffat Yves",
"Petchey Owen L."
] | creative-commons |
Distinct regionalization patterns of cortical morphology are
associated with cognitive performance across different domains
C E Palmer1, W Zhao2, R Loughnan2, J Zou4, C C Fan1,3, W K Thompson4, A M Dale2,5,6,7
& T L Jernigan1,2,5,7
1.
Center for Human Development, University of California, San Diego, 9500 Gi... | 2021 | Distinct regionalization patterns of cortical morphology are associated with cognitive performance across different domains | 10.1101/2020.02.13.948596 | [
"Palmer C E",
"Zhao W",
"Loughnan R",
"Zou J",
"Fan C C",
"Thompson W K",
"Dale A M",
"Jernigan T L"
] | creative-commons |
Deep learning can predict multi-omic biomarkers from routine
pathology images: A systematic large-scale study
Authors:
Salim Arslan#1*, Debapriya Mehrotra1,2, Julian Schmidt1, Andre Geraldes1, Shikha Singhal1,3, Julius
Hense1, Xiusi Li1, Cher Bass1,4, Jakob Nikolas Kather5,6, and Pandu Raharja-Liu#1
Affiliations:
1 Pan... | 2022 | Deep learning can predict multi-omic biomarkers from routine pathology images: A systematic large-scale study | 10.1101/2022.01.21.477189 | [
"Arslan Salim",
"Mehrotra Debapriya",
"Schmidt Julian",
"Geraldes Andre",
"Singhal Shikha",
"Hense Julius",
"Li Xiusi",
"Bass Cher",
"Kather Jakob Nikolas",
"Raharja-Liu Pandu"
] | creative-commons |
1
Differential timing for glucose assimilation in Prochlorococcus and coexistent microbial
1
populations at the North Pacific Subtropical Gyre
2
3
Running title –Diel changes in glucose assimilation by Prochlorococcus
4
5
María del Carmen Muñoz-Marín1, Solange Duhamel2͎✢, Karin M. Björkman3, Jonathan D.... | 2021 | Differential timing for glucose assimilation in and coexistent microbial populations at the North Pacific Subtropical Gyre | 10.1101/2021.10.04.462702 | [
"Muñoz-Marín María del Carmen",
"Duhamel Solange",
"Björkman Karin M.",
"Magasin Jonathan D.",
"Díez Jesús",
"Karl David M.",
"García-Fernández José M."
] | null |
T-Gene: Improved target gene prediction
Timothy O’Connor 1, Charles E. Grant 2, Mikael Bod´en3 and Timothy L. Bailey 4,∗
1O’Connor Informatics Consulting LLC, Round Rock, TX 78681
2Seattle, Washington
3School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane 4072, Australia
4Department of P... | 2019 | T-Gene: Improved target gene prediction | 10.1101/803221 | [
"O’Connor Timothy",
"Grant Charles E.",
"Bodén Mikael",
"Bailey Timothy L."
] | creative-commons |
1
Spreading of a mycobacterial cell surface lipid into host epithelial membranes promotes
1
infectivity
2
3
C.J. Cambier1, Steven M. Banik1, Joseph A. Buonomo1, and Carolyn R. Bertozzi1,2,*
4
5
1Department of Chemistry, Stanford University, Stanford, CA, 94305, USA
6
2Howard Hughes Medical Institute, S... | 2020 | Spreading of a mycobacterial cell surface lipid into host epithelial membranes promotes infectivity | 10.1101/845081 | [
"Cambier C.J.",
"Banik Steven M.",
"Buonomo Joseph A.",
"Bertozzi Carolyn R."
] | creative-commons |
1
Structure Learning for Hierarchical Regulatory Networks
Anthony Federico1,2, Joseph Kern3, Xaralabos Varelas3, Stefano Monti1,2,*
1. Section of Computational Biomedicine, Boston University School of Medicine, Boston, MA, USA
2. Bioinformatics Program, Boston University, Boston, MA, USA
3. Department of Bioch... | 2021 | Structure Learning for Hierarchical Regulatory Networks | 10.1101/2021.05.27.446022 | [
"Federico Anthony",
"Kern Joseph",
"Varelas Xaralabos",
"Monti Stefano"
] | null |
The Vaginal Microbiome in Women of Reproductive
Age with Healthy Weight versus Overweight/Obesity
Natalie G. Allen1,2, Laahirie Edupuganti3, David J. Edwards4, Nicole R. Jimenez3, Gregory
A. Buck3, Kimberly K. Jefferson3, Jerome F. Strauss III5, Vaginal Microbiome Consortium,
*Edmond P. Wickham III2,6 and Jennife... | 2021 | The Vaginal Microbiome in Women of Reproductive Age with Healthy Weight versus Overweight/Obesity | 10.1101/2021.03.18.435996 | null | null |
bioRxiv
Intrinsic Functional Connectivity in the Default
Mode Network Predicts Mnemonic
Discrimination: A Connectome-based
Modeling Approach
Christopher N. Wahlheim1,�,
, Alexander P. Christensen2,
, Zachariah M. Reagh3,
,
and Brittany S. Cassidy1,
1Department of Psychology, University of North Carolina at Greensboro
2... | 2021 | Intrinsic Functional Connectivity in the Default Mode Network Predicts Mnemonic Discrimination: A Connectome-based Modeling Approach | 10.1101/2021.07.09.451777 | [
"Wahlheim Christopher N.",
"Christensen Alexander P.",
"Reagh Zachariah M.",
"Cassidy Brittany S."
] | creative-commons |
Single-cell morphometrics reveals ancestral principles of notochord development
Toby G R Andrews1, Wolfram Pönisch2, Ewa Paluch2, Benjamin J Steventon3, Elia Benito-Gutierrez1*
1 Department of Zoology, University of Cambridge, United Kingdom
2 Department of Physiology, Development and Neuroscience, University o... | 2020 | Single-cell morphometrics reveals ancestral principles of notochord development | 10.1101/2020.07.08.193813 | [
"Andrews Toby G R",
"Pönisch Wolfram",
"Paluch Ewa",
"Steventon Benjamin J",
"Benito-Gutierrez Elia"
] | creative-commons |
Network analysis reveals how lipids and other cofactors influence
membrane protein allostery
Annie M. Westerlund, Oliver Fleetwood‡, Sergio Perez-Conesa‡, and Lucie Delemotte∗
KTH Royal Institute of Technology, Science for Life Laboratory, Stockholm
Abstract
Many membrane proteins are modulated by external stimuli, such... | 2020 | Network analysis reveals how lipids and other cofactors influence membrane protein allostery | 10.1101/2020.07.06.187484 | [
"Westerlund Annie M.",
"Fleetwood Oliver",
"Perez-Conesa Sergio",
"Delemotte Lucie"
] | creative-commons |
Plumage colouration differs between offspring raised in natural cavities and nestboxes
1
Katarzyna Janas1*, Irene Di Lecce2, Marta Szulkin2, Joanna Sudyka3,4
2
1 Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland
3
2 Centre of New Technologies, University of Warsaw, Warsaw, Poland
4
3 I... | 2022 | Plumage colouration differs between offspring raised in natural cavities and nestboxes | 10.1101/2022.08.29.505638 | [
"Janas Katarzyna",
"Lecce Irene Di",
"Szulkin Marta",
"Sudyka Joanna"
] | creative-commons |
1
A novel Alex3/Gαq protein complex regulating mitochondrial dynamics,
1
dendritic complexity, and neuronal survival
2
3
4
Ismael Izquierdo-Villalba*1, Serena Mirra*2,3,4,5,6, Yasmina Manso*2,4, Antoni
5
Parcerisas2,4,7, Javier Rubio1, Jaume Del Valle4,8, Francisco J. Gil-Bea4,9, Fausto Ulloa2,4,
6
Mar... | 2021 | A novel Alex3/Gα protein complex regulating mitochondrial dynamics, dendritic complexity, and neuronal survival | 10.1101/2021.12.09.471902 | [
"Izquierdo-Villalba Ismael",
"Mirra Serena",
"Manso Yasmina",
"Parcerisas Antoni",
"Rubio Javier",
"Del Valle Jaume",
"Gil-Bea Francisco J.",
"Ulloa Fausto",
"Herrero-Lorenzo Marina",
"Verdaguer Ester",
"Benincá Cristiane",
"Castro-Torres Rubén D.",
"Rebollo Elena",
"Marfany Gemma",
"Aul... | null |
1
Identifying Biomarkers of Retinal Pigment Epithelial Cell Stem Cell-
1
derived RPE Cell Heterogeneity and Transplantation Efficacy
2
3
Farhad Farjood1, Justine D. Manos2, Yue Wang1, Anne L. Williams1, Cuiping Zhao3, Susan
4
Borden1, Nazia Alam4, Glen Prusky4, Sally Temple1, Jeffrey H. Stern1,5, Nathan C. B... | 2022 | Identifying Biomarkers of Retinal Pigment Epithelial Cell Stem Cell-derived RPE Cell Heterogeneity and Transplantation Efficacy | 10.1101/2022.11.22.517447 | [
"Farjood Farhad",
"Manos Justine D.",
"Wang Yue",
"Williams Anne L.",
"Zhao Cuiping",
"Borden Susan",
"Alam Nazia",
"Prusky Glen",
"Temple Sally",
"Stern Jeffrey H.",
"Boles Nathan C."
] | creative-commons |
1
Knocking out non-muscle myosin II in retinal ganglion cells promotes long-distance optic nerve
1
regeneration
2
3
Xue-Wei Wang1, †, Shu-Guang Yang1, †, Chi Zhang1, †, Jin-Jin Ma3, Yingchi Zhang1, Bin-Bin Yang1, Yi-
4
Lan Weng5, Guo-Li Ming6, Anish R. Kosanam1, Saijilafu3, 4, *, and Feng-Quan Zhou1, 2, *
... | 2019 | Knocking out non-muscle myosin II in retinal ganglion cells promotes long-distance optic nerve regeneration | 10.1101/625707 | null | null |
Page 1 of 29
Low frequency oscillatory activity of the subthalamic nucleus is a
1
predictive biomarker of compulsive-like cocaine seeking.
2
3
Subthalamic nucleus activity predicts compulsivity.
4
5
Mickaël Degoulet1, Alix Tiran-Cappello1, Christelle Baunez1*# and Yann Pelloux1†#
6
7
1 Institu... | 2019 | Low frequency oscillatory activity of the subthalamic nucleus is a predictive biomarker of compulsive-like cocaine seeking | 10.1101/451203 | [
"Degoulet Mickaël",
"Tiran-Cappello Alix",
"Baunez Christelle",
"Pelloux Yann"
] | null |
Ten complete mitochondrial genomes of Gymnocharacini (Stethaprioninae,
Characiformes): evolutionary relationships and a repetitive element in the
Control Region (D-loop)
Rubens Pasa1,3, Fabiano Bezerra Menegídio2, Igor Henrique Rodrigues-Oliveira1,
Iuri Batista da Silva1, Matheus Lewi Cruz Bonaccors... | 2020 | Ten complete mitochondrial genomes of Gymnocharacini (Stethaprioninae, Characiformes): evolutionary relationships and a repetitive element in the Control Region (D-loop) | 10.1101/2020.10.26.355867 | [
"Pasa Rubens",
"Menegídio Fabiano Bezerra",
"Rodrigues-Oliveira Igor Henrique",
"da Silva Iuri Batista",
"de Campos Matheus Lewi Cruz Bonaccorsi",
"Rocha-Reis Dinaíza Abadia",
"Heslop-Harrison John Seymour (Pat)",
"Schwarzacher Trude",
"Kavalco Karine Frehner"
] | null |
Notch Signaling Commits Mesoderm to the
Cardiac Lineage
Evan S. Bardot1,2,3, Bharati Jadhav2,4, Nadeera Wickramasinghe1,2,3, Amélie Rezza1,2,3, Michael
Rendl1,2,3, Andrew J. Sharp2,4, and Nicole C. Dubois1,2,3,5
1Department of Cell, Developmental, and Regenerative Biology,
2Mindich Child Health and Development Instit... | 2020 | Notch Signaling Commits Mesoderm to the Cardiac Lineage | 10.1101/2020.02.20.958348 | [
"Bardot Evan S.",
"Jadhav Bharati",
"Wickramasinghe Nadeera",
"Rezza Amélie",
"Rendl Michael",
"Sharp Andrew J.",
"Dubois Nicole C."
] | creative-commons |
1
Massively parallel functional testing of MSH2 missense variants conferring
1
Lynch Syndrome risk
2
3
Xiaoyan Jia,1 Bala Bharathi Burugula,1 Victor Chen.1 Rosemary M. Lemons,1 Sajini Jayakody,1 Mariam
4
Maksutova,1 Jacob O. Kitzman1,2,*
5
6
1Department of Human Genetics, University of Michigan, An... | 2020 | Massively parallel functional testing of missense variants conferring Lynch Syndrome risk | 10.1101/2020.06.03.133017 | [
"Jia Xiaoyan",
"Burugula Bala Bharathi",
"Chen Victor",
"Lemons Rosemary M.",
"Jayakody Sajini",
"Maksutova Mariam",
"Kitzman Jacob O."
] | null |
Disruption of OsLAT5 is sufficient to endow rice tolerance to
1
dihydropyridine herbicides at commercial application concentrations
2
Ronghua Chen†, Di Zhao, Diya Yu, Chaozheng Li, Siwei Wang, Hanhong Xu* and Fei Lin*
3
4
State Key Laboratory for Conservation and Utilization of Subtropical Agro-
5
Bioresource... | 2022 | Disruption of is sufficient to endow rice tolerance to dihydropyridine herbicides at commercial application concentrations | 10.1101/2022.11.06.515312 | [
"Chen Ronghua",
"Zhao Di",
"Yu Diya",
"Li Chaozheng",
"Wang Siwei",
"Xu Hanhong",
"Lin Fei"
] | null |
February 27, 2021
1 / 15
1
Modulation of early level EEG signatures by distributed
2
facial emotion cues
3
Diana Costa1,2, Camila Dias1,2, Teresa Sousa1,2, João Estiveira1,2,, João Castelhano1,2,
4
Verónica Figueiredo1,2, Andreia Pereira1,2, Miguel Castelo-Branco1,2,3*
5
6
1 CIBIT - Coimbra Institute for Biomedica... | 2021 | Modulation of early level EEG signatures by distributed facial emotion cues | 10.1101/2021.03.03.433729 | [
"Costa Diana",
"Dias Camila",
"Sousa Teresa",
"Estiveira João",
"Castelhano João",
"Figueiredo Verónica",
"Pereira Andreia",
"Castelo-Branco Miguel"
] | creative-commons |
1
Loss of EED in the oocyte causes initial fetal growth restriction followed by placental
1
hyperplasia and offspring overgrowth.
2
3
Short title: Epigenetic regulation of fetal growth restriction, placental expansion and
4
offspring overgrowth
5
6
7
Authors: Ruby Oberin1#, Sigrid Petautsc... | 2022 | Loss of EED in the oocyte causes initial fetal growth restriction followed by placental hyperplasia and offspring overgrowth | 10.1101/2022.08.08.503175 | [
"Oberin Ruby",
"Petautschnig Sigrid",
"Tsai Tesha",
"Qu Zhipeng",
"Jarred Ellen G.",
"Bildsoe Heidi",
"Truong Thi T.",
"Fernando Dilini",
"van den Buuse Maarten",
"Gardner David K.",
"Sims Natalie A.",
"Adelson David L.",
"Western Patrick S."
] | creative-commons |
UHRF1, NSUN2, and NEIL1 were Detected as Clinical Biomarker Candidates
in Prostate Adenocarcinoma with Potential Roles in Disease Pathogenesis
Buse Nur Kahyaoğulları¹, Turan Demircan²,³
1) Institute of Health Sciences, Muğla Sıtkı Koçman University, Muğla, Turkey
2) Medical Biology Department, School of Medicine, Muğla... | 2021 | UHRF1, NSUN2, and NEIL1 were Detected as Clinical Biomarker Candidates in Prostate Adenocarcinoma with Potential Roles in Disease Pathogenesis | 10.1101/2021.10.23.465589 | [
"Kahyaoğulları Buse Nur",
"Demircan Turan"
] | creative-commons |
1
1
The methyl phosphate capping enzyme Bin3 is a stable component of the fission yeast
2
telomerase holoenzyme
3
4
Jennifer Porat1, Moaine El Baidouri2,3, Jorg Grigull4, Jean-Marc Deragon2,3,5, & Mark A.
5
Bayfield1*
6
1. Department of Biology, York University, Toronto, Canada
7
2. LGDP-UMR5096, Un... | 2021 | The methyl phosphate capping enzyme Bin3 is a stable component of the fission yeast telomerase holoenzyme | 10.1101/2021.04.08.438850 | [
"Porat Jennifer",
"Baidouri Moaine El",
"Grigull Jorg",
"Deragon Jean-Marc",
"Bayfield Mark A."
] | creative-commons |
UNDERSTANDING DOUBLE DESCENT THROUGH THE LENS OF
PRINCIPAL COMPONENT REGRESSION
A PREPRINT
Christine H. Lind
Department of Electrical and Computer Engineering,
University of California San Diego,
La Jolla, CA, USA
clind@eng.ucsd.edu
Angela J. Yu
Department of Cognitive Science & HalIcioglu Data Science Institute,
Unive... | 2021 | Understanding double descent through the lens of principal component regression | 10.1101/2021.04.26.441538 | [
"Lind Christine H.",
"Yu Angela J."
] | creative-commons |
NEMETEX: a Python software for the visualisation of the network of metabolic
exchanges
Michela Palamin1, Alice Frisinghelli1, Elisabetta Offer1, Guido Zampieri1, Arianna Basile1,2*, Stefano Campanaro1,3*
1Department of Biology, University of Padova, Via Ugo Bassi 58/b 35131 Padova, Italy
2The Medical Research Council T... | 2022 | NEMETEX: a Python software for the visualisation of the network of metabolic exchanges | 10.1101/2022.10.19.492777 | [
"Palamin Michela",
"Frisinghelli Alice",
"Offer Elisabetta",
"Zampieri Guido",
"Basile Arianna",
"Campanaro Stefano"
] | creative-commons |
1
Towards a standardization of non-symbolic numerical experiments: GeNEsIS,
1
a flexible and user-friendly tool to generate controlled stimuli
2
3
Mirko Zanon1, Davide Potrich1, Maria Bortot1, Giorgio Vallortigara1
4
5
1 Center for Mind/Brain Sciences, University of Trento, Rovereto, Italy
6
7
Cor... | 2021 | Towards a standardization of non-symbolic numerical experiments: GeNEsIS, a flexible and user-friendly tool to generate controlled stimuli | 10.1101/2021.03.03.433737 | [
"Zanon Mirko",
"Potrich Davide",
"Bortot Maria",
"Vallortigara Giorgio"
] | creative-commons |
1
Classification: Biological Sciences
Neuroimaging contrast across the cortical hierarchy is the feature maximally
linked to behavior and demographics
Feng Han1, Yameng Gu1, Gregory L Brown2, Xiang Zhang3, Xiao Liu1,4 *
1Department of Biomedical Engineering, The Pennsylvania State University, PA, USA;
2De... | 2019 | Neuroimaging contrast across the cortical hierarchy is the feature maximally linked to behavior and demographics | 10.1101/730226 | [
"Han Feng",
"Gu Yameng",
"Brown Gregory L",
"Zhang Xiang",
"Liu Xiao"
] | null |
Desert Hedgehog-driven endothelium integrity is enhanced by Gas1 but
negatively regulated by Cdon
Authors and affiliations
Candice Chapouly1, Pierre-Louis Hollier1, Sarah Guimbal1, Lauriane Cornuault1, Alain-Pierre Gadeau1
and Marie-Ange Renault1
1 Univ. Bordeaux, Inserm, Biology of Cardiovascular Disea... | 2020 | Desert Hedgehog-driven endothelium integrity is enhanced by Gas1 but negatively regulated by Cdon | 10.1101/2020.04.20.050542 | [
"Chapouly Candice",
"Hollier Pierre-Louis",
"Guimbal Sarah",
"Cornuault Lauriane",
"Gadeau Alain-Pierre",
"Renault Marie-Ange"
] | null |
1
A novel rationale for targeting FXI: Insights from the hemostastic miRNA targetome for
emerging anticoagulant strategies
Authors:
Jamie Nourse1,2 and Sven Danckwardt1,2,3
Affiliations:
1 Center for Thrombosis and Hemostasis (CTH), University Medical Center of the Johannes
Gutenberg University, Mainz, Ger... | 2019 | A novel rationale for targeting FXI: Insights from the hemostastic miRNA targetome for emerging anticoagulant strategies | 10.1101/501676 | [
"Nourse Jamie",
"Danckwardt Sven"
] | null |
Epitranscriptomic editing of the RNA N6-methyladenosine modification
by dCasRx conjugated methyltransferase and demethylase
Zhen Xia1,2,3,4, Min Tang5, Hongyan Zhang2,3,4, Ryan C. Gimple6, Briana C.
Prager6,7,Hongzhen Tang2,3,4, Chongran Sun8, Fuyi Liu8, Peng Lin2,3,4, Yutang
Mei2,3,4, Ruoxin Du2,3,4, Jeremy N. R... | 2020 | Epitranscriptomic editing of the RNA N6-methyladenosine modification by dCasRx conjugated methyltransferase and demethylase | 10.1101/2020.10.27.356436 | [
"Xia Zhen",
"Tang Min",
"Zhang Hongyan",
"Gimple Ryan C.",
"Prager Briana C.",
"Tang Hongzhen",
"Sun Chongran",
"Liu Fuyi",
"Lin Peng",
"Mei Yutang",
"Du Ruoxin",
"Rich Jeremy N.",
"Xie Qi"
] | creative-commons |
METLIN Neutral Loss Database Enhances Similarity Analysis
Aries Aisporna,† H. Paul Benton,† Jean Marie Galano,& Martin Giera,# and Gary Siuzdak†,‡,*
† Scripps Center for Metabolomics and Mass Spectrometry, The Scripps Research Institute, 10550 North
Torrey Pines Road, La Jolla, CA 92037
# Institut des Bio... | 2021 | METLIN Neutral Loss Database Enhances Similarity Analysis | 10.1101/2021.04.02.438066 | [
"Aisporna Aries",
"Benton H. Paul",
"Galano Jean Marie",
"Giera Martin",
"Siuzdak Gary"
] | creative-commons |
Page 1 of 41
The PfAP2-G2 transcription factor is a critical
regulator of gametocyte maturation
Suprita Singh1, Joana M. Santos1,*, Lindsey M. Orchard1, Naomi Yamada3$, Riëtte van
Biljon1, Heather J. Painter1,#, Shaun Mahony2, Manuel Llinás1,2,3,‡
1Department of Biochemistry and Molecular Biology, The ... | 2020 | The PfAP2-G2 transcription factor is a critical regulator of gametocyte maturation | 10.1101/2020.10.27.355685 | [
"Singh Suprita",
"Santos Joana M.",
"Orchard Lindsey M.",
"Yamada Naomi",
"van Biljon Riëtte",
"Painter Heather J.",
"Mahony Shaun",
"Llinás Manuel"
] | creative-commons |
Distinct roles of microtubules and actin filaments in defining dendritic
architecture
Sumit Nanda1, Shatabdi Bhattacharjee2, Daniel N. Cox2, Giorgio A. Ascoli1,3*
1. Center for Neural Informatics, Structures, & Plasticity and Neuroscience Program, Krasnow Institute for
Advanced Study, George Mason University, Fai... | 2019 | Distinct roles of microtubules and actin filaments in defining dendritic architecture | 10.1101/2019.12.22.885004 | [
"Nanda Sumit",
"Bhattacharjee Shatabdi",
"Cox Daniel N.",
"Ascoli Giorgio A."
] | null |
1
Rhes protein transits from neuron to neuron and facilitates mutant huntingtin
spreading in the brain.
Uri Nimrod Ramírez-Jarquín1#. Manish Sharma1#, Neelam Shahani1, Yuqing Li2,
Siddaraju Boregowda3, and Srinivasa Subramaniam1*
1Department of Neuroscience,
The Scripps Research Institute, 130 Scripps Way... | 2021 | Rhes protein transits from neuron to neuron and facilitates mutant huntingtin spreading in the brain | 10.1101/2021.08.27.457956 | [
"Ramírez-Jarquín Uri Nimrod",
"Sharma Manish",
"Shahani Neelam",
"Li Yuqing",
"Boregowda Siddaraju",
"Subramaniam Srinivasa"
] | null |
Performance Evaluation of Traditional Signal Processing
Methods in Localizing Tursiops truncatus Whistles in a
Reverberant Aquatic Environment
SF Woodward1*, MO Magnasco1
1 Laboratory of Integrative Neuroscience, Center for Studies in Physics and Biology,
The Rockefeller University, New York, NY, United States
* sf.woo... | 2019 | Performance Evaluation of Traditional Signal Processing Methods in Localizing Whistles in a Reverberant Aquatic Environment | 10.1101/642736 | [
"Woodward SF",
"Magnasco MO"
] | creative-commons |
1
Genomic evidence for inbreeding depression and purging of deleterious
1
genetic variation in Indian tigers
2
Anubhab Khan1*, Kaushalkumar Patel1, Harsh Shukla1, Ashwin Viswanathan1,2, Tom
3
van der Valk 3, Udayan Borthakur4, Parag Nigam5, Arun Zachariah6, Yadavendradev
4
Jhala5, Marty Kardos7*, Uma Ramakri... | 2021 | Genomic evidence for inbreeding depression and purging of deleterious genetic variation in Indian tigers | 10.1101/2021.05.18.444660 | [
"Khan Anubhab",
"Patel Kaushalkumar",
"Shukla Harsh",
"Viswanathan Ashwin",
"van der Valk Tom",
"Borthakur Udayan",
"Nigam Parag",
"Zachariah Arun",
"Jhala Yadavendradev",
"Kardos Marty",
"Ramakrishnan Uma"
] | creative-commons |
Vector-valued dopamine improves learning of continuous
outputs in the striatum
Emil Wärnberg1, 2 and Arvind Kumar2
1Dept. of Neuroscience, Karolinska Institutet, Stockholm, Sweden
2Division of Computational Science and Technology, School of Electrical
Engineering and Computer Science, KTH Royal Institute of Technology,... | 2022 | Vector-valued dopamine improves learning of continuous outputs in the striatum | 10.1101/2022.11.30.518587 | [
"Wärnberg Emil",
"Kumar Arvind"
] | creative-commons |
1
The
monosialoganglioside
GM1a
protects
trophoblasts,
erythrocytes and endothelial cells against complement attack.
Henri Wedekind1, Julia Beimdiek1, Charlotte Rossdam1, Elina Kats1, Vanessa Wittek1, Lisa
Schumann1, Andreas Tiede2, Falk F. R. Buettner1, Birgit Weinhold1, Anja Münster-Kühnel1* and
Markus... | 2022 | The monosialoganglioside GM1a protects trophoblasts, erythrocytes and endothelial cells against complement attack | 10.1101/2022.01.24.477475 | [
"Wedekind Henri",
"Beimdiek Julia",
"Rossdam Charlotte",
"Kats Elina",
"Wittek Vanessa",
"Schumann Lisa",
"Tiede Andreas",
"Buettner Falk F. R.",
"Weinhold Birgit",
"Münster-Kühnel Anja",
"Abeln Markus"
] | null |
1
Idiosyncratic Tower of Babel: Individual differences in word meaning representation increase along
abstractness
Short Title: Idiosyncratic Tower of Babel
Authors: Xiaosha Wang1,2 & Yanchao Bi1,2*
Affiliations:
1 State Key Laboratory of Cognitive Neuroscience and Learning & IDG/McGovern Insti... | 2020 | Idiosyncratic Tower of Babel: Individual differences in word meaning representation increase along abstractness | 10.1101/2020.08.28.272997 | [
"Wang Xiaosha",
"Bi Yanchao"
] | creative-commons |
1
Glial Hedgehog and lipid metabolism regulate neural stem cell proliferation in
Drosophila
Qian Dong1,2, Michael Zavortink1,2, Francesca Froldi1,2, Sofya Golenkina1,2, Tammy
Lam1,2, Louise Y. Cheng1,2,3
1 Peter MacCallum Cancer Centre, 305 Grattan St, Parkville, Victoria, 3000
2 Sir Peter MacCallum Departm... | 2020 | Glial Hedgehog and lipid metabolism regulate neural stem cell proliferation in | 10.1101/2020.05.18.100990 | [
"Dong Qian",
"Zavortink Michael",
"Froldi Francesca",
"Golenkina Sofya",
"Lam Tammy",
"Cheng Louise Y."
] | creative-commons |
Predicting the specific substrate for transmembrane
transport proteins using BERT language model
Sima Ataei
Department of Computer Science and Software Engineering
Concordia University
Montreal, Canada
sima.ataei@concordia.ca
Gregory Butler
Department of Computer Science and Software Engineering
Concordia University
Mo... | 2022 | Predicting the specific substrate for transmembrane transport proteins using BERT language model | 10.1101/2022.07.23.501263 | [
"Ataei Sima",
"Butler Gregory"
] | creative-commons |
Competitive learning suggests circulating miRNA profiles
for cancers decades prior to diagnosis
Andreas Keller1,2, Tobias Fehlmann1, Christina Backes1, Fabian Kern1, Randi Gislefoss3, Hilde
Langseth3,4, Trine B. Rounge3,5, Nicole Ludwig6, Eckart Meese6
1 Chair of Clinical Bioinformatics, Saarland University,... | 2020 | Competitive learning suggests circulating miRNA profiles for cancers decades prior to diagnosis | 10.1101/2020.03.26.009597 | [
"Keller Andreas",
"Fehlmann Tobias",
"Backes Christina",
"Kern Fabian",
"Gislefoss Randi",
"Langseth Hilde",
"Rounge Trine B.",
"Ludwig Nicole",
"Meese Eckart"
] | creative-commons |
1
Carbon footprint of South Dakota dairy production system and assessment of
mitigation options
Anna M. Naranjo1, Heidi Sieverding2, David Clay3, and Ermias Kebreab1 *
1Department of Animal Science, University of California, Davis, California, United States of
America
2South Dakota Mines, Rapid City, South Dakota, Un... | 2022 | Carbon footprint of South Dakota dairy production system and assessment of mitigation options | 10.1101/2022.05.16.492173 | [
"Naranjo Anna M.",
"Sieverding Heidi",
"Clay David",
"Kebreab Ermias"
] | creative-commons |
Euplotid
A quantized geometric model of the eukaryotic cell
Author:
Diego Borges-Rivera
Massachusetts Institute of Technology
January 2, 2020
Figure 0.1: Graphical Abstract
2
“The cell is a system that is capable of creating and conserving its own code” –Marcello Barbieri1
The Cambrian Explosion is responsible for th... | 2020 | Euplotid: A quantized geometric model of the eukaryotic cell | 10.1101/170159 | null | creative-commons |
1
A physical mechanism of TANGO1-mediated bulky cargo
1
export
2
3
4
Ishier Raote1,*,#, Morgan Chabanon2,*, Nikhil Walani3, Marino Arroyo3,4,5, Maria F. Garcia-
5
Parajo2,6, Vivek Malhotra1,6,7,#, and Felix Campelo2,#
6
7
1 Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and T... | 2020 | A physical mechanism of TANGO1-mediated bulky cargo export | 10.1101/576637 | [
"Raote Ishier",
"Chabanon Morgan",
"Walani Nikhil",
"Arroyo Marino",
"Garcia-Parajo Maria F.",
"Malhotra Vivek",
"Campelo Felix"
] | creative-commons |
1
TITLE
Weakly supervised Unet: an image classifier which learns to explain itself.
ABSTRACT
Background
Explainability is a major limitation of current convolutional neural network (CNN) image
classifiers. A CNN is required which supports its image-level prediction with a voxel-level
segmentation.
Methods ... | 2022 | Weakly supervised Unet: an image classifier which learns to explain itself | 10.1101/2022.09.09.507144 | [
"O’Shea Robert John",
"Horst Carolyn",
"Manickavasagar Thubeena",
"Hughes Daniel",
"Cusack James",
"Tsoka Sophia",
"Cook Gary",
"Goh Vicky"
] | creative-commons |
1
Sensing their plasma membrane curvature allows migrating cells to
circumvent obstacles
Ewa Sitarska1,§, Silvia Dias Almeida1,‡, Marianne Sandvold Beckwith1, Julian Stopp2,
Yannick Schwab1, Michael Sixt2, Anna Kreshuk1, Anna Erzberger1,* and Alba Diz-
Muñoz1,*
Addresses
1 Cell Biology and Biophysics ... | 2021 | Sensing their plasma membrane curvature allows migrating cells to circumvent obstacles | 10.1101/2021.03.26.437199 | [
"Sitarska Ewa",
"Almeida Silvia Dias",
"Beckwith Marianne Sandvold",
"Stopp Julian",
"Schwab Yannick",
"Sixt Michael",
"Kreshuk Anna",
"Erzberger Anna",
"Diz-Muñoz Alba"
] | creative-commons |
1
The biogenesis and function of nucleosome arrays
Ashish Kumar Singh1, Tamás Schauer†,2, Lena Pfaller†,1,3, Tobias Straub2, Felix
Mueller-Planitz1,4*
1Molecular Biology, Biomedical Center, Faculty of Medicine, Ludwig-Maximilians-
Universität München, 82152 Planegg-Martinsried, Germany
2Bioinformatics ... | 2021 | The biogenesis and function of nucleosome arrays | 10.1101/2021.02.10.429500 | [
"Singh Ashish Kumar",
"Schauer Tamás",
"Pfaller Lena",
"Straub Tobias",
"Mueller-Planitz Felix"
] | null |
Mitotic bookmarking redundancy by nuclear
receptors mediates robust post-mitotic
reactivation of the pluripotency network.
Almira Chervova1,2,a, Amandine Molliex1,2,a, H. Irem Baymaz3, Thaleia Papadopoulou1,2, Florian Mueller4, Eslande Hercul1,2,
David Fournier1,2, Agnès Dubois1,2, Nicolas Gaiani1,2, Petra Beli3,5, Nic... | 2022 | Mitotic bookmarking redundancy by nuclear receptors mediates robust post-mitotic reactivation of the pluripotency network | 10.1101/2022.11.28.518105 | [
"Chervova Almira",
"Molliex Amandine",
"Baymaz H. Irem",
"Papadopoulou Thaleia",
"Mueller Florian",
"Hercul Eslande",
"Fournier David",
"Dubois Agnès",
"Gaiani Nicolas",
"Beli Petra",
"Festuccia Nicola",
"Navarro Pablo"
] | creative-commons |
Tosolini et al., December 2021 – BioRxiv preprint
1
BDNF-dependent modulation of axonal transport is
selectively impaired in ALS
Andrew P. Tosolini 1,2 *, James N. Sleigh 1,2,3, Sunaina Surana 1,2,3, Elena R. Rhymes 1,2, Stephen D.
Cahalan 4 and Giampietro Schiavo 1,2,3,5*
1 Department of Neuromuscular ... | 2021 | BDNF-dependent modulation of axonal transport is selectively impaired in ALS | 10.1101/2021.12.06.471484 | [
"Tosolini Andrew P.",
"Sleigh James N.",
"Surana Sunaina",
"Rhymes Elena R.",
"Cahalan Stephen D.",
"Schiavo Giampietro"
] | creative-commons |
Climatic limits for the present European distribution of hornbeam
(Carpinus betulus), with special reference to Ukraine
V.M. Tytar
Department of Evolutionary & Genetic Fundamentals of Systematics,
Institute of Zoology, National Academy of Sciences of Ukraine, Kyiv, e-mail:
vtytar@gmail.com
Summary.
In this stu... | 2019 | Climatic limits for the present European distribution of hornbeam (), with special reference to Ukraine | 10.1101/506428 | null | creative-commons |
1
Active Enterohepatic Cycling is Not Required for the Choleretic Actions of 24-norUrsodeoxycholic
Acid in Mice
Jianing Li1*, Jennifer K. Truong1*, Kimberly Pachura1, Anuradha Rao1, Sanjeev Gambeer2, Claudia
Daniela Fuchs3, Saul J. Karpen1, Michael Trauner3, Paul A. Dawson1
1Department of Pediatrics, Divisio... | 2021 | Active Enterohepatic Cycling is Not Required for the Choleretic Actions of 24-Ursodeoxycholic Acid in Mice | 10.1101/2021.03.06.430841 | [
"Li Jianing",
"Truong Jennifer K.",
"Pachura Kimberly",
"Rao Anuradha",
"Gambeer Sanjeev",
"Fuchs Claudia Daniela",
"Karpen Saul J.",
"Trauner Michael",
"Dawson Paul A."
] | creative-commons |
DELPHI: accurate deep ensemble model for protein
interaction sites prediction
Yiwei Li1, Lucian Ilie1,*,
1 Department of Computer Science
University of Western Ontario
* ilie@uwo.ca
Abstract
Motivation: Proteins usually perform their functions by interacting with other
proteins, which is why accurately predicting prote... | 2020 | DELPHI: accurate deep ensemble model for protein interaction sites prediction | 10.1101/2020.01.31.929570 | [
"Li Yiwei",
"Ilie Lucian"
] | creative-commons |
1
Two-target quantitative PCR to predict library composition for shallow shotgun
1
sequencing
2
3
Matthew Y. Cho1,2, Marc Oliva3,4, Anna Spreafico3, Bo Chen5, Xu Wei5, Yoojin Choi1,2,
4
Rupert Kaul1,2, Lillian L. Siu3, Bryan Coburn1,2* and Pierre H. H. Schneeberger1,2*
5
6
* Co-senior Authors
7
8
... | 2020 | Two-target quantitative PCR to predict library composition for shallow shotgun sequencing | 10.1101/2020.09.21.304006 | [
"Cho Matthew Y.",
"Oliva Marc",
"Spreafico Anna",
"Chen Bo",
"Wei Xu",
"Choi Yoojin",
"Kaul Rupert",
"Siu Lillian L.",
"Coburn Bryan",
"Schneeberger Pierre H. H."
] | creative-commons |
The genomic signature of wild-to-crop introgression during the
1
domestication of scarlet runner bean (Phaseolus coccineus L.)
2
3
Azalea Guerra-García1,2, Idalia C. Rojas-Barrera1,3, Jeffrey Ross-Ibarra4, Roberto
4
Papa5 and Daniel Piñero1
5
1 Departamento de Ecología Evolutiva, Instituto de Ecología, Universidad
6
Na... | 2021 | The genomic signature of wild-to-crop introgression during the domestication of scarlet runner bean ( L.) | 10.1101/2021.02.03.429668 | [
"Guerra-García Azalea",
"Rojas-Barrera Idalia C.",
"Ross-Ibarra Jeffrey",
"Papa Roberto",
"Piñero Daniel"
] | creative-commons |
TECHNICAL NOTE
1
CRIMINALISTICS
2
Jill Hager Cocking,1, 2 M.S.; Sgt. Ryan Turley,3 Viacheslav Y. Fofanov,1 Ph.D.; Kimberly Samuels-Crow, 1
3
Ph.D.; Bruce Hungate,4,5 Ph.D.; Rebecca L. Mau,2 M.S.; Paul S. Keim, 2 Ph.D.; J. Gregory Caporaso,6
4
Ph.D.; and Crystal Hepp,1 Ph.D.
5
Forensic analysis of Soil Mi... | 2020 | Forensic analysis of Soil Microbiomes: Linking Evidence to a Geographic Location | 10.1101/2020.07.10.198044 | [
"Cocking Jill Hager",
"Turley Sgt. Ryan",
"Fofanov Viacheslav Y.",
"Samuels-Crow Kimberly",
"Hungate Bruce",
"Mau Rebecca L.",
"Keim Paul S.",
"Caporaso J. Gregory",
"Hepp Crystal"
] | creative-commons |
Title page
Highly responsive single-fluorophore
indicator to explore lactate dynamics in high
calcium environments
Galaz A1., Sandoval PY1., Soto-Ojeda I1., Hertenstein H2., Schweizer J2., Schirmeier S2.,
Barros, L.F1 & San Martín, A1*.
1Centro de Estudios Científicos-CE... | 2020 | Highly responsive single-fluorophore indicator to explore lactate dynamics in high calcium environments | 10.1101/2020.10.01.322404 | [
"Galaz A.",
"Sandoval PY.",
"Soto-Ojeda I.",
"Hertenstein H.",
"Schweizer J.",
"Schirmeier S.",
"Barros L.F",
"San Martín A."
] | creative-commons |
Genomic variations and epigenomic landscape of the
Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel
Adrien Leger1*, Ian Brettell1*, Jack Monahan1, Carl Barton1, Nadeshda Wolf3, Natalja Kusminski3,
Cathrin Herder3, Narendar Aadepu2,3, Clara Becker2, Jakob Gierten2, Omar T. Hammouda2, Eva
Hasel2, Colin Lischik2, Katharina Lus... | 2021 | Genomic variations and epigenomic landscape of the Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel | 10.1101/2021.05.17.444424 | [
"Leger Adrien",
"Brettell Ian",
"Monahan Jack",
"Barton Carl",
"Wolf Nadeshda",
"Kusminski Natalja",
"Herder Cathrin",
"Aadepu Narendar",
"Becker Clara",
"Gierten Jakob",
"Hammouda Omar T.",
"Hasel Eva",
"Lischik Colin",
"Lust Katharina",
"Suzuki Risa",
"Tavhelidse Tinatini",
"Thumbe... | creative-commons |
1
Effect of RNA preservation methods on RNA quantity and quality
1
of field collected avian whole blood
2
3
JOHANNA A. HARVEY1, 2* and SARAH A. KNUTIE1
4
5
1Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA 2 Current
6
address: Division of Invertebrate Zoology,... | 2021 | Effect of RNA preservation methods on RNA quantity and quality of field collected avian whole blood | 10.1101/2021.11.16.468897 | [
"Harvey Johanna A.",
"Knutie Sarah A."
] | creative-commons |
Identifying Site-specific Superoxide and
Hydrogen Peroxide Production Rates from the Mitochondrial Electron Transport System
Using a Computational Strategy
Quynh V. Duong1, Yan Levitsky2, Maria J. Dessinger2, Jason N. Bazil2, *
1Department of Biochemistry and Molecular Biology, Michigan State University, East Lans... | 2021 | Identifying Site-specific Superoxide and Hydrogen Peroxide Production Rates from the Mitochondrial Electron Transport System Using a Computational Strategy | 10.1101/2021.07.01.450791 | [
"Duong Quynh V.",
"Levitsky Yan",
"Dessinger Maria J.",
"Bazil Jason N."
] | null |
1
Amoxicillin inactivation by thiol-catalyzed cyclization reduces protein haptenation and
antibacterial potency
María A. Pajares1, Tahl Zimmerman1, Francisco J. Sánchez-Gómez1, Adriana Ariza2,3, María J.
Torres2,3,4, Miguel Blanca5, F. Javier Cañada1, María I. Montañez2,3*, Dolores Pérez-Sala1*
1Dept. of Stru... | 2019 | Amoxicillin inactivation by thiol-catalyzed cyclization reduces protein haptenation and antibacterial potency | 10.1101/647966 | [
"Pajares María A.",
"Zimmerman Tahl",
"Sánchez-Gómez Francisco J.",
"Ariza Adriana",
"Torres María J.",
"Blanca Miguel",
"Cañada F. Javier",
"Montañez María I.",
"Pérez-Sala Dolores"
] | creative-commons |
Gene conversion explains elevated diversity in the immunity modulating APL1
1
gene of the malaria vector Anopheles funestus
2
3
Jack Hearn*1, Jacob M. Riveron1,2, Helen Irving1, Gareth D. Weedall3 and Charles S.
4
Wondji1,2
5
6
1Department of Vector Biology, Liverpool School of Tropical Medicine, Liverpoo... | 2021 | Gene conversion explains elevated diversity in the immunity modulating APL1 gene of the malaria vector | 10.1101/2021.11.25.470000 | [
"Hearn Jack",
"Riveron Jacob M.",
"Irving Helen",
"Weedall Gareth D.",
"Wondji Charles S."
] | creative-commons |
Senescence-induced cellular reprogramming drives cnidarian
whole-body regeneration
Miguel Salinas-Saavedra1, Febrimarsa1, Gabriel Krasovec1, Helen R Horkan1,
Andreas D Baxevanis2, Uri Frank1*
1Centre for Chromosome Biology, School of Biological and Chemical Sciences,
University of Galway, Galway, Irela... | 2022 | Senescence-induced cellular reprogramming drives cnidarian whole-body regeneration | 10.1101/2022.09.02.506310 | null | creative-commons |
1
SEPARABLE PUPILLARY SIGNATURES OF PERCEPTION AND ACTION DURING
1
PERCEPTUAL MULTISTABILITY
2
3
Jan W. Brascamp1,2*, Gilles de Hollander3, Michael D. Wertheimer1, Ashley N. DePew1, Tomas
4
Knapen4,5
5
6
1. Michigan State University, Department of Psychology
7
2. Michigan State University, Neuroscien... | 2021 | Separable pupillary signatures of perception and action during perceptual multistability | 10.1101/2021.01.22.427816 | [
"Brascamp Jan W.",
"de Hollander Gilles",
"Wertheimer Michael D.",
"DePew Ashley N.",
"Knapen Tomas"
] | creative-commons |
1
Subcellular mRNA localization regulates ribosome biogenesis in migrating cells
Maria Dermit1, Martin Dodel1, Flora C. Y. Lee2,3, Muhammad S. Azman1, Hagen Schwenzer4, J.
Louise Jones5, Sarah P. Blagden4, Jernej Ule2,3, & Faraz K. Mardakheh1*.
5
1: Centre for Cancer Cell and Molecular Biology, Barts Cancer ... | 2019 | Subcellular mRNA localization regulates ribosome biogenesis in migrating cells | 10.1101/829739 | [
"Dermit Maria",
"Dodel Martin",
"Lee Flora C. Y.",
"Azman Muhammad S.",
"Schwenzer Hagen",
"Jones J. Louise",
"Blagden Sarah P.",
"Ule Jernej",
"Mardakheh Faraz K."
] | null |
Multiplexed strain phenotyping defines consequences of genetic diversity in
Mycobacterium tuberculosis for infection and vaccination outcomes
AUTHORS
Allison F. Carey1,2*, Xin Wang1, Nico Cicchetti2, Caitlin N. Spaulding1, Qingyun Liu1, Forrest
Hopkins1, Jessica Brown1, Jaimie Sixsmith1, Thomas R. Ioerger3, S... | 2022 | Multiplexed strain phenotyping defines consequences of genetic diversity in for infection and vaccination outcomes | 10.1101/2022.01.23.477410 | [
"Carey Allison F.",
"Wang Xin",
"Cicchetti Nico",
"Spaulding Caitlin N.",
"Liu Qingyun",
"Hopkins Forrest",
"Brown Jessica",
"Sixsmith Jaimie",
"Ioerger Thomas R.",
"Fortune Sarah M."
] | creative-commons |
1
1
An alternative binding mode of IGHV3-53 antibodies
2
to the SARS-CoV-2 receptor binding domain
3
4
5
Nicholas C. Wu1,*, Meng Yuan1,*, Hejun Liu1,*, Chang-Chun D. Lee1, Xueyong Zhu1,
6
Sandhya Bangaru1, Jonathan L. Torres1, Tom G. Caniels2, Philip J.M. Brouwer2, Marit J.
7
van Gils2, Rogier W. S... | 2020 | An alternative binding mode of IGHV3-53 antibodies to the SARS-CoV-2 receptor binding domain | 10.1101/2020.07.26.222232 | [
"Wu Nicholas C.",
"Yuan Meng",
"Liu Hejun",
"Lee Chang-Chun D.",
"Zhu Xueyong",
"Bangaru Sandhya",
"Torres Jonathan L.",
"Caniels Tom G.",
"Brouwer Philip J.M.",
"van Gils Marit J.",
"Sanders Rogier W.",
"Ward Andrew B.",
"Wilson Ian A."
] | creative-commons |
Effect of diet on host shifts
1
Diet has no effect on susceptibility to an RNA virus across host species
1
2
K. E. Roberts* and B. Longdon
3
Centre for Ecology & Conservation, College of Life and Environmental Sciences,
4
University of Exeter, Penryn Campus, Penryn, Cornwall, TR10 9FE, UK
5
*Corresponding... | 2020 | Diet has no effect on susceptibility to an RNA virus across host species | 10.1101/2020.10.21.348987 | [
"Roberts K. E.",
"Longdon B."
] | creative-commons |
Structural basis for ligand recognition and G protein-coupling promiscuity of the
cholecystokinin A receptor
Qiufeng Liu1,*, Dehua Yang1,2,3,*, Youwen Zhuang1,*, Tristan I. Croll4, Xiaoqing Cai3, Antao Dai3,
Xinheng He1,2, Jia Duan1,2, Wanchao Yin1, Chenyu Ye5, Fulai Zhou1, Beili Wu1,2,6,7, Qiang Zhao2,7,8,
H. Er... | 2021 | Structural basis for ligand recognition and G protein-coupling promiscuity of the cholecystokinin A receptor | 10.1101/2021.05.09.443337 | [
"Liu Qiufeng",
"Yang Dehua",
"Zhuang Youwen",
"Croll Tristan I.",
"Cai Xiaoqing",
"Dai Antao",
"He Xinheng",
"Duan Jia",
"Yin Wanchao",
"Ye Chenyu",
"Zhou Fulai",
"Wu Beili",
"Zhao Qiang",
"Eric Xu H.",
"Wang Ming-Wei",
"Jiang Yi"
] | null |
1
Chromosome-level assemblies of multiple Arabidopsis genomes
1
reveal hotspots of rearrangements with altered evolutionary
2
dynamics
3
4
Wen-Biao Jiao1 and Korbinian Schneeberger1,2,*
5
6
1Max Planck Institute for Plant Breeding Research, Department for Plant Developmental
7
Biology, Carl-von-Linné-... | 2019 | Chromosome-level assemblies of multiple Arabidopsis genomes reveal hotspots of rearrangements with altered evolutionary dynamics | 10.1101/738880 | [
"Jiao Wen-Biao",
"Schneeberger Korbinian"
] | creative-commons |
Bayesian stroke modeling details sex biases in the
white matter substrates of aphasia
Julius M. Kernbach1,2,3, MD; Gesa Hartwigsen4, PhD;
Jae-Sung Lim5, MD; Hee-Joon Bae6, MD; Kyung-Ho Yu7, MD PhD;
Gottfried Schlaug3, MD PhD; Anna Bonkhoff8, MD; Natalia S. Rost8, MD;
Danilo Bzdok9,10,*, MD PhD
1Neurosurgical Artificia... | 2022 | Bayesian stroke modeling details sex biases in the white matter substrates of aphasia | 10.1101/2022.01.18.474989 | [
"Kernbach Julius M.",
"Hartwigsen Gesa",
"Lim Jae-Sung",
"Bae Hee-Joon",
"Yu Kyung-Ho",
"Schlaug Gottfried",
"Bonkhoff Anna",
"Rost Natalia S.",
"Bzdok Danilo"
] | creative-commons |
1
In vitro reconstituted quorum sensing pathways enable
rapid evaluation of quorum sensing inhibitors
Dingchen Yu1,*
1College of Life Sciences, Wuhan University, Wuhan 430072, PR China
*Corresponding author: Dingchen Yu (vincent_dcyu@whu.edu.cn)
ABSTRACT: Quorum sensing, as inner- or inter-species microbial communicati... | 2021 | In vitro reconstituted quorum sensing pathways enable rapid evaluation of quorum sensing inhibitors | 10.1101/2021.10.29.466404 | null | creative-commons |
1
The SPARC complex defines RNAPII promoters in Trypanosoma brucei
Desislava P. Staneva1,2, Stefan Bresson1, Tatsiana Auchynnikava1,4,
Christos Spanos1, Juri Rappsilber1,3, A. Arockia Jeyaprakash1, David Tollervey1,
Keith R. Matthews2 † and Robin C. Allshire1 †
1 Wellcome Centre for Cell Biology and Inst... | 2022 | The SPARC complex defines RNAPII promoters in | 10.1101/2022.07.14.499694 | [
"Staneva Desislava P.",
"Bresson Stefan",
"Auchynnikava Tatsiana",
"Spanos Christos",
"Rappsilber Juri",
"Jeyaprakash A. Arockia",
"Tollervey David",
"Matthews Keith R.",
"Allshire Robin C."
] | creative-commons |
1
Evolutionary Changes in Left-Right Visceral Asymmetry in Astyanax Cavefish
Li Ma1, Mandy Ng1, Janet Shi1, Aniket V. Gore2, Daniel Castranova2, Brant M.
Weinstein2, and William R. Jeffery1*
1Department of Biology, University of Maryland, College Park, MD 20742 USA and
2Division of Developmental Biology, Eun... | 2020 | Evolutionary Changes in Left-Right Visceral Asymmetry in Cavefish | 10.1101/2020.05.15.098483 | [
"Ma Li",
"Ng Mandy",
"Shi Janet",
"Gore Aniket V.",
"Castranova Daniel",
"Weinstein Brant M.",
"Jeffery William R."
] | null |
Tactile spatial discrimination on the torso using
vibrotactile and force stimulation
Atena Fadaei J.1,2, Matteo Franza1,2, Oliver Alan Kannape1,2, Masayuki Hara3,
Olaf Blanke1,2.
1 Laboratory of Cognitive Neuroscience, Center for Neuroprosthetics, Faculty of Life Sciences, Swiss
Federal Institute of Technol... | 2021 | Tactile spatial discrimination on the torso using vibrotactile and force stimulation | 10.1101/2021.03.26.437195 | [
"Fadaei J. Atena",
"Franza Matteo",
"Kannape Oliver Alan",
"Hara Masayuki",
"Blanke Olaf"
] | creative-commons |
Somatotopic organization of mechanosensory afferents in the stellate ganglion of the squid,
Euprymna.
Robyn J Crook
Rcrook@sfsu.edu
San Francisco State University
1600 Holloway Avenue, San Francisco, CA 94132
Abstract:
Cephalopod molluscs are growing in popularity and use as comparative models o... | 2022 | Somatotopic organization of mechanosensory afferents in the stellate ganglion of the squid, | 10.1101/2022.10.21.513268 | null | creative-commons |
CDCP: a visualization and analyzing platform for single-cell datasets
Yuejiao Li2, †, Tao Yang1, †, Tingting Lai1, †, Lijin You1, †, Fan Yang1, †, Jiaying Qiu2,3, †, Lina Wang1, Wensi Du1,
Cong Hua1, Zhicheng Xu1, Jia Cai1, Zhiyong Li1, Yiqun Liu1, Ling Li1, Minwen Zhang1, Jing Chen1, Lei Zhang1,
Dongsheng Chen2,3... | 2021 | CDCP: a visualization and analyzing platform for single-cell datasets | 10.1101/2021.08.24.457455 | [
"Li Yuejiao",
"Yang Tao",
"Lai Tingting",
"You Lijin",
"Yang Fan",
"Qiu Jiaying",
"Wang Lina",
"Du Wensi",
"Hua Cong",
"Xu Zhicheng",
"Cai Jia",
"Li Zhiyong",
"Liu Yiqun",
"Li Ling",
"Zhang Minwen",
"Chen Jing",
"Zhang Lei",
"Chen Dongsheng",
"Liu Shiping",
"Wu Liang",
"Zeng ... | creative-commons |
1
ETHYLENE RESPONSE FACTOR 115 integrates jasmonate and cytokinin signaling
1
machineries to repress adventitious rooting in Arabidopsis
2
3
Abdellah Lakehal1, Asma Dob1, Zahra Rahneshan 1,2,a, Ondřej Novák3,4, Sacha Escamez1,
4
Sanaria Alallaq1, Miroslav Strnad3, Hannele Tuominen1, Catherine Bellini 1, 5 *... | 2020 | integrates jasmonate and cytokinin signaling machineries to repress adventitious rooting in | 10.1101/2019.12.27.886796 | [
"Lakehal Abdellah",
"Dob Asma",
"Rahneshan Zahra",
"Novák Ondřej",
"Escamez Sacha",
"Alallaq Sanaria",
"Strnad Miroslav",
"Tuominen Hannele",
"Bellini Catherine"
] | null |
1
Cerebellar contribution to preparatory activity in motor neocortex
1
2
Francois P. Chabrol, Antonin Blot and Thomas D. Mrsic-Flogel
3
Biozentrum, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland.
4
Sainsbury Wellcome Center, University College London, 25 Howland Street London, W1T 4JG, ... | 2019 | Cerebellar contribution to preparatory activity in motor neocortex | 10.1101/335703 | [
"Chabrol Francois P.",
"Blot Antonin",
"Mrsic-Flogel Thomas D."
] | null |
1
1
2
3
Predicting an epistasis-rich genotype-phenotype map with a coarse-grained bottom-up model
4
of budding yeast polarity
5
6
A proof-of-concept for phenotype prediction in model organisms
7
8
Werner Karl-Gustav Daalman1, Liedewij Laan1*
9
10
11
12
13
1 Department of Bionanosci... | 2020 | Predicting an epistasis-rich genotype-phenotype map with a coarse-grained bottom-up model of budding yeast polarity | 10.1101/2020.11.30.403758 | [
"Daalman Werner Karl-Gustav",
"Laan Liedewij"
] | creative-commons |
Mutation in the TRKB cholesterol recognition site that blocks antidepressant binding does not
influence the basal or BDNF-stimulated activation of TRKB
Caroline Biojone1, 2, 3, Cecilia Cannarozzo1, Nina Seiffert1, Cassiano RAF Diniz1,4, Cecilia A Brunello 1, Eero
Castrén1, Plinio Casarotto1*
1 Neuroscience Center - HiL... | 2022 | Mutation in the TRKB cholesterol recognition site that blocks antidepressant binding does not influence the basal or BDNF-stimulated activation of TRKB | 10.1101/2022.08.26.505413 | [
"Biojone Caroline",
"Cannarozzo Cecilia",
"Seiffert Nina",
"Diniz Cassiano RAF",
"Brunello Cecilia A",
"Castrén Eero",
"Casarotto Plinio"
] | null |
The P4-ATPase Drs2 regulates homeostasis of Atg9
Irene Pazos1, Marta Puig-Tintó1, Jorge Cordero1, Nereida Jiménez-Menéndez1, Marc Abella1,2, Ana G. Duran1,3, Emi Adachi-Fernández1, Carla Belmon-
te-Mateos1, Susana Sabido-Bozo4,5, Altair Chinchilla1, Sébastien Tosi6, Akiko Nezu7,8, Julien Colombelli6, Todd R. Graham9... | 2020 | The P4-ATPase Drs2 regulates homeostasis of Atg9 | 10.1101/2020.12.25.417865 | [
"Pazos Irene",
"Puig-Tintó Marta",
"Cordero Jorge",
"Jiménez-Menéndez Nereida",
"Abella Marc",
"Duran Ana G.",
"Adachi-Fernández Emi",
"Belmonte-Mateos Carla",
"Sabido-Bozo Susana",
"Chinchilla Altair",
"Tosi Sébastien",
"Nezu Akiko",
"Colombelli Julien",
"Graham Todd R.",
"Yoshimori Tam... | creative-commons |
Morawski et al., Fluorescence loss in serum-free media
1
Rapid light-dependent degradation of fluorescent dyes in formulated
serum-free media†
Peter A. Morawski1*, Samantha J. Motley1, Daniel J. Campbell1,2
1Immunology Research Program, Benaroya Research Institute, Seattle WA 98101, USA.
2Department of Immuno... | 2019 | Rapid light-dependent degradation of fluorescent dyes in formulated serum-free media | 10.1101/578856 | [
"Morawski Peter A.",
"Motley Samantha J.",
"Campbell Daniel J."
] | null |
1
Contribution of self- and other-regarding motives to (dis)honesty
*Anastasia Shuster1,2 and Dino J Levy1,2
1Sagol School of Neuroscience, Tel Aviv University
2Coller School of Management, Tel Aviv University
(*) Corresponding author
Corresponding Author contact information:
Phone: +1 212-5... | 2020 | Contribution of self- and other-regarding motives to (dis)honesty | 10.1101/590208 | [
"Shuster Anastasia",
"Levy Dino J"
] | null |
Running Head: LANGUAGE EXPERIENCE AND NEUROPLASTICITY
1
Neuroplasticity associated with conversational turn-taking following a family-based
intervention
Rachel R. Romeo1,a, Julia A. Leonard1,b, Hannah M. Grotzinger1c, Sydney T. Robinson1d,
Megumi E. Takada1,e, Allyson P. Mackey1,b, Ethan Scherer2, Meredith ... | 2020 | Neuroplasticity associated with conversational turn-taking following a family-based intervention | 10.1101/2020.10.30.362723 | [
"Romeo Rachel R.",
"Leonard Julia A.",
"Grotzinger Hannah M.",
"Robinson Sydney T.",
"Takada Megumi E.",
"Mackey Allyson P.",
"Scherer Ethan",
"Rowe Meredith L.",
"West Martin R.",
"Gabrieli John D. E."
] | creative-commons |
1
Structured connectivity in the cerebellum enables noise-resilient pattern separation
1
2
Tri M. Nguyen1,*, Logan A. Thomas1,5*, Jeff L. Rhoades1,2, Ilaria Ricchi1,6, Xintong Cindy
3
Yuan1,2, Arlo Sheridan3,7, David G. C. Hildebrand1,8, Jan Funke3, Wade G. Regehr1, Wei-Chung
4
Allen Lee4
5
6
1 Depart... | 2021 | Structured connectivity in the cerebellum enables noise-resilient pattern separation | 10.1101/2021.11.29.470455 | [
"Nguyen Tri M.",
"Thomas Logan A.",
"Rhoades Jeff L.",
"Ricchi Ilaria",
"Yuan Xintong Cindy",
"Sheridan Arlo",
"Hildebrand David G. C.",
"Funke Jan",
"Regehr Wade G.",
"Lee Wei-Chung Allen"
] | creative-commons |
1
The Protein Mat(ters) - Revealing Biologically Relevant Mechanical Contribution of
Collagen and Fibronectin Coated Micropatterns
Aron N. Horvath, Claude N. Holenstein, Unai Silvan, Jess G. Snedeker*
A. Horvath, Dr. C. Holenstein, Dr. U. Silvan, Prof. Dr. J. Snedeker
Biomechanics Laboratory, Universit... | 2019 | The Protein Mat(ters) - Revealing Biologically Relevant Mechanical Contribution of Collagen and Fibronectin Coated Micropatterns | 10.1101/668905 | [
"Horvath Aron N.",
"Holenstein Claude N.",
"Silvan Unai",
"Snedeker Jess G."
] | null |
1
The value of the whole or the sum of the parts: The role of ventromedial
prefrontal cortex in multi-attribute object evaluation
Gabriel Pelletier1,2, Nadav Aridan3, *Lesley K Fellows1,2 & *Tom Schonberg3,4
1 Department of Neurology and Neurosurgery, McGill University, Montreal, Canada
2 Montreal Neurologic... | 2020 | The value of the whole or the sum of the parts: The role of ventromedial prefrontal cortex in multi-attribute object evaluation | 10.1101/2020.09.29.319293 | [
"Pelletier Gabriel",
"Aridan Nadav",
"Fellows Lesley K",
"Schonberg Tom"
] | creative-commons |
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