10.1002/fsn3.1002

Nutritional potential of wild sorghum: Grain quality of Sudanese wild sorghum genotypes ( <i>Sorghum bicolor</i> L. Moench)
Cited by: 19
Author(s): Tilal Sayed Abdelhalim, Nasrein Mohamed Kamal, Amro B. Hassan
Software Mentions: 1
Published: over 7 years ago

10.15252/emmm.202012063

Trans‐generational epigenetic regulation associated with the amelioration of Duchenne Muscular Dystrophy
Cited by: 8
Author(s): Julie Martone, Michela Lisi, Francesco Castagnetti, Alessandro Rosa, V. Di Carlo, Enrique Blanco, Adriano Setti, Davide Mariani, Alessio Colantoni, Tiziana Santini, Lucia Perone, Luciano Di Croce, Irene Bozzoni
Software Mentions: 1
Published: about 6 years ago

10.1186/s12913-016-1734-6

A pilot study among older adults of the concordance between their self-reports to a health survey and spousal proxy reports on their behalf
Cited by: 12
Author(s): Fredric D. Wolinsky, Lioness Ayres, Michael P. Jones, Yiyue Lou, George L. Wehby, Fred Ullrich
Software Mentions: 1
Published: almost 10 years ago

10.15252/embj.2020106449

Yeast translation elongation factor eEF3 promotes late stages of tRNA translocation
Cited by: 16
Author(s): Namit Ranjan, Agnieszka A. Pochopien, Colin Chih-Chien Wu, Bertrand Beckert, Sophie Blanchet, Rachel Green, Marina V. Rodnina, Daniel N. Wilson
Software Mentions: 1
Published: over 5 years ago

10.1186/s12913-019-4881-8

Experience gained from the implementation of the Saudi TraumA Registry (STAR)
Cited by: 5
Author(s): Jane E. Ford, Abdulrahman Alqahtani, Shatha A. A. Abuzinada, Peter Cameron, Mark Fitzgerald, Ahmed Alenizi, Dina Farjou
Software Mentions: 1
Published: over 6 years ago

10.15252/embj.201798357

Cancer cells copy migratory behavior and exchange signaling networks via extracellular vesicles
Cited by: 56
Author(s): Sander Christiaan Steenbeek, Thang V. Pham, Joep de Ligt, Anoek Zomer, Jaco C. Knol, Sander R. Piersma, Tim Schelfhorst, Rick Huisjes, Raymond M. Schiffelers, Edwin Cuppen, Connie R. Jiménez, Jacco van Rheenen
Software Mentions: 1
Published: about 8 years ago

10.3390/ijms20184345

Functional Dissection of pri-miR-290~295 in Dgcr8 Knockout Mouse Embryonic Stem Cells
Cited by: 3
Author(s): Ming Shi, Jun Hao, Xiwen Wang, Le‐Qi Liao, Cao H, Yangming Wang
Software Mentions: 1
Published: almost 7 years ago

10.1016/j.ebiom.2021.103243

Increased apolipoprotein-B:A1 ratio predicts cardiometabolic risk in patients with juvenile onset SLE
Cited by: 20
Author(s): George Robinson, Kirsty E. Waddington, Leda Coelewij, Junjie Peng, Meena Naja, Chris Wincup, Anna Radziszewska, Hannah Peckham, David Isenberg, Yiannis Ioannou, Coziana Ciurtin, Inés Pineda-Torra, Elizabeth C. Jury
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.ppat.1007850

The protective effect of inflammatory monocytes during systemic C. albicans infection is dependent on collaboration between C-type lectin-like receptors
Cited by: 33
Author(s): Aiysha Thompson, Luke C. Davies, Chia‐Te Liao, Diogo M da Fonseca, J. S. Griffiths, Robert Andrews, Aled Jones, Mathew Clement, Gordon D. Brown, Ian R. Humphreys, Philip Russel Taylor, Selinda J. Orr
Software Mentions: 1
Published: about 7 years ago

10.1016/j.ebiom.2019.11.048

A multistage sequencing strategy pinpoints novel candidate alleles for Emery-Dreifuss muscular dystrophy and supports gene misregulation as its pathomechanism
Cited by: 24
Author(s): Peter Meinke, Alastair Kerr, Rafal Czapiewski, Jose I. de las Heras, Charles R Dixon, Elizabeth Harris, Heike Kölbel, Francesco Muntoni, Ulrike Schara, Volker Straub, Benedikt Schöser, Manfred Wehnert, Eric C. Schirmer
Software Mentions: 1
Published: over 6 years ago

10.1242/dmm.039545

Active receptor tyrosine kinases, but not Brachyury, are sufficient to trigger chordoma in zebrafish
Cited by: 11
Author(s): Gianluca D’Agati, Elena M. Cabello, Karl Frontzek, Elisabeth J. Rushing, Robin W. Klemm, Mark D. Robinson, Richard M. White, Christian Mosimann, Alexa Burger
Software Mentions: 1
Published: over 7 years ago

10.1186/s12913-021-06521-1

Protocol for a two-arm pragmatic stepped-wedge hybrid effectiveness-implementation trial evaluating Engagement and Collaborative Management to Proactively Advance Sepsis Survivorship (ENCOMPASS)
Cited by: 3
Author(s): Marc Kowalkowski, Tara Eaton, Andrew McWilliams, Hazel Tapp, Aleta Rios, Stephanie Murphy, Ryan Burns, Bella Gutnik, Katherine O’Hare, Lewis McCurdy, Michael Dulin, Christopher M. Blanchette, Shih-Hsiung Chou, Scott D. Halpern, Derek C. Angus, Stephanie Parks Taylor
Software Mentions: 1
Published: about 5 years ago

10.1186/s12864-018-4456-9

Ouroboros resembling competitive endogenous loop (ORCEL) in circular RNAs revealed through transcriptome sequencing dataset analysis
Cited by: 4
Author(s): Yu-Chen Liu, Hsiao Chin Hong, Chi Yang, Wei Hsiang Lee, Hsin Tzu Huang, Hsien-Da Huang
Software Mentions: 1
Published: about 8 years ago

10.1242/dmm.040782

Targeted knockout of GABA receptor gamma 2 subunit provokes transient light-induced reflex seizures in zebrafish larvae
Cited by: 24
Author(s): Meijiang Liao, Uday Praful Kundap, Richard Rosch, Dominic R. W. Burrows, Martin P. Meyer, Bouchra Ouled Amar Bencheikh, Patrick Cossette, Éric Samarut
Software Mentions: 1
Published: over 7 years ago

10.1242/dmm.026104

From integrative genomics to systems genetics in the rat to link genotypes to phenotypes
Cited by: 25
Author(s): Aida Moreno‐Moral, Enrico Petretto
Software Mentions: 1
Published: almost 10 years ago

10.1242/dmm.030056

Generation of a double binary transgenic zebrafish model to study myeloid gene regulation in response to oncogene activation in melanocytes
Cited by: 12
Author(s): Amy Kenyon, Daria Gavriouchkina, Jernej Zorman, Vanessa Chong, Giorgio Napolitani, Vincenzo Cerundolo, Tatjana Sauka‐Spengler
Software Mentions: 1
Published: over 8 years ago

10.1242/dmm.038513

Mandibular dysmorphology due to abnormal embryonic osteogenesis in FGFR2-related craniosynostosis mice
Cited by: 19
Author(s): Susan M. Motch Perrine, Meng Wu, Nicholas B. Stephens, Divya Kriti, Harm van Bakel, Ethylin Wang Jabs, Joan T. Richtsmeier
Software Mentions: 1
Published: over 7 years ago

10.1242/dmm.040105

Characterization of the human GnRH neuron developmental transcriptome using a <i>GNRH1</i>-TdTomato reporter line in human pluripotent stem cells
Cited by: 17
Author(s): Carina Lund, Venkatram Yellapragada, Sanna Vuoristo, Diego Balboa, Sara Trova, Cécile Allet, Nazli Eskici, Kristiina Pulli, Paolo Giacobini, Timo Tuuri, Taneli Raivio
Software Mentions: 1
Published: over 6 years ago

10.7554/eLife.36861

Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION
Cited by: 418
Author(s): Takanori Nakane, Dari Kimanius, Erik Lindahl, Sjors H.W. Scheres
Software Mentions: 1
Published: about 8 years ago

10.1242/dmm.038083

Modelling the MYC-driven normal-to-tumour switch in breast cancer
Cited by: 13
Author(s): Corey Lourenco, Manpreet Kalkat, Kathleen E. Houlahan, Jason De Melo, Joseph Longo, Susan J. Done, Paul C. Boutros, Linda Z. Penn
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0204241

MYB1 transcription factor is a candidate responsible for red root skin in radish (Raphanus sativus L.)
Cited by: 17
Author(s): Gibum Yi, June-Sik Kim, Jeong Eun Park, Hosub Shin, Seung Hwa Yu, Suhyung Park, Jin Hoe Huh
Software Mentions: 1
Published: almost 8 years ago

10.1038/srep22177

Evolution of the assassin’s arms: insights from a phylogeny of combined transcriptomic and ribosomal DNA data (Heteroptera: Reduvioidea)
Cited by: 33
Author(s): Junxia Zhang, Eric R. L. Gordon, Michael Forthman, Wei Song Hwang, Kimberly K. O. Walden, Daniel R. Swanson, Kevin P. Johnson, Rudolf Meier, Christiane Weirauch
Software Mentions: 1
Published: over 10 years ago

10.1186/s13059-019-1895-9

deSALT: fast and accurate long transcriptomic read alignment with de Bruijn graph-based index
Cited by: 38
Author(s): Bo Liu, Yadong Liu, Junyi Li, Hongzhe Guo, Tianyi Zang, Yadong Wang
Software Mentions: 1
Published: over 6 years ago

10.1186/s13059-019-1896-8

CTCF modulates allele-specific sub-TAD organization and imprinted gene activity at the mouse Dlk1-Dio3 and Igf2-H19 domains
Cited by: 49
Author(s): David Llères, Benoît Moindrot, Rakesh Pathak, Vincent Piras, Mélody Matelot, Benoît Pignard, Alice Marchand, Mallory Poncelet, Aurélien Perrin, Virgile Tellier, Robert Feil, Daan Noordermeer
Software Mentions: 1
Published: over 6 years ago

10.1186/s13059-019-1818-9

Global impact of somatic structural variation on the DNA methylome of human cancers
Cited by: 23
Author(s): Yiqun Zhang, Lixing Yang, Melanie Kucherlapati, Angela Hadjipanayis, Angeliki Pantazi, Christopher A. Bristow, Eunjung Alice Lee, Harshad S. Mahadeshwar, Jie Hu, Jianhua Zhang, Sahil Seth, Semin Lee, Xiaojia Ren, Xingzhi Song, Huandong Sun, Jonathan G. Seidman, Lovelace J. Luquette, Ruibin Xi, Lynda Chin, Alexei Protopopov, Peter J. Park, Raju Kucherlapati, Chad J. Creighton
Software Mentions: 1
Published: over 6 years ago

10.1186/s13059-018-1587-x

Downregulation of RdDM during strawberry fruit ripening
Cited by: 112
Author(s): Jingfei Cheng, Qingfeng Niu, Bo Zhang, Kunsong Chen, Rui Yang, Jian‐Kang Zhu, Yijing Zhang, Zhaobo Lang
Software Mentions: 1
Published: over 7 years ago

10.1186/s13059-018-1535-9

SeqOthello: querying RNA-seq experiments at scale
Cited by: 34
Author(s): Ye Yu, Jinpeng Liu, Xinan Liu, Yi Zhang, Eamonn Magner, Erik Lehnert, Chen Qian, Jinze Liu
Software Mentions: 1
Published: over 7 years ago

10.1186/s13059-018-1496-z

Single-cell RNAseq for the study of isoforms—how is that possible?
Cited by: 93
Author(s): Ángeles Arzalluz-Luque, Ana Conesa
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0183939

Characterization of lincRNA expression in the human retinal pigment epithelium and differentiated induced pluripotent stem cells
Cited by: 11
Author(s): Elizabeth Au, Rosario Fernández-Godino, Tadeusz J. Kaczynksi, Maria E Sousa, Michael H. Farkas
Software Mentions: 1
Published: almost 9 years ago

10.1186/s13059-018-1446-9

SINC-seq: correlation of transient gene expressions between nucleus and cytoplasm reflects single-cell physiology
Cited by: 43
Author(s): Mahmoud N. Abdelmoez, Kei Iida, Yusuke Oguchi, Hidekazu Nishikii, Ryuji Yokokawa, Hidetoshi Kotera, Shunsuke Uemura, Juan G. Santiago, Hirofumi Shintaku
Software Mentions: 1
Published: about 8 years ago

10.1186/s13059-018-1421-5

SQUID: transcriptomic structural variation detection from RNA-seq
Cited by: 24
Author(s): Cong Ma, Mingfu Shao, Carl Kingsford
Software Mentions: 1
Published: about 8 years ago

10.1186/s13059-018-1389-1

An obesity-associated gut microbiome reprograms the intestinal epigenome and leads to altered colonic gene expression
Cited by: 98
Author(s): Yufeng Qin, John D. Roberts, Sara A. Grimm, Fred B. Lih, Leesa J. Deterding, Ruifang Li, Kaliopi Chrysovergis, Paul A. Wade
Software Mentions: 1
Published: over 8 years ago

10.3390/ijms22115741

Molecular Insights into the Role of Cysteine-Rich Peptides in Induced Resistance to Fusarium oxysporum Infection in Tomato Based on Transcriptome Profiling
Cited by: 7
Author(s): Marina P. Slezina, Е. А. Истомина, Tatyana V. Korostyleva, Alexey S. Kovtun, Artem S. Kasianov, Alexey A. Konopkin, Л. А. Щербакова
Software Mentions: 1
Published: about 5 years ago

10.7554/eLife.66808

Expansion of CD10neg neutrophils and CD14+HLA-DRneg/low monocytes driving proinflammatory responses in patients with acute myocardial infarction
Cited by: 18
Author(s): Daniela Fraccarollo, Jonas Neuser, Julian Möller, Christian Riehle, Paolo Galuppo, Johann Bauersachs
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0236882

Mutations in m6A consensus motifs are suppressed in the m6A modified genes in human cancer cells
Cited by: 3
Author(s): Mingzi An, Wang Hui-yun, Yingqian Zhu
Software Mentions: 1
Published: almost 6 years ago

10.1186/s13059-017-1339-3

Intron retention enhances gene regulatory complexity in vertebrates
Cited by: 74
Author(s): Ulf Schmitz, Natalia Pinello, Fangzhi Jia, Sultan Alasmari, William Ritchie, Maria-Cristina Keightley, S. Shini, Graham J. Lieschke, Justin Wong, John E.J. Rasko
Software Mentions: 1
Published: over 8 years ago

10.1186/s13059-017-1330-z

The influence of microRNAs and poly(A) tail length on endogenous mRNA–protein complexes
Cited by: 42
Author(s): Olivia S. Rissland, Alexander O. Subtelny, Miranda Wang, Andrew Lugowski, Beth Nicholson, John Laver, Sachdev S. Sidhu, Craig Smibert, Howard D. Lipshitz, David P. Bartel
Software Mentions: 1
Published: over 8 years ago

10.1186/s13059-017-1270-7

Population and allelic variation of A-to-I RNA editing in human transcriptomes
Cited by: 40
Author(s): Eddie Park, Jianqiang Guo, Shihao Shen, Levon Demirdjian, Ying Wu, Lan Lin, Yi Xing
Software Mentions: 1
Published: almost 9 years ago

10.1186/s13059-016-1079-9

Extensive RNA editing and splicing increase immune self-representation diversity in medullary thymic epithelial cells
Cited by: 52
Author(s): Miri Danan-Gotthold, C. Guyon, Matthieu Giraud, Erez Y. Levanon, Jakub Abramson
Software Mentions: 1
Published: over 9 years ago

10.1186/s13059-016-0984-2

Comprehensive analysis of promoter-proximal RNA polymerase II pausing across mammalian cell types
Cited by: 66
Author(s): Daniel S. Day, Bing Zhang, Sean Stevens, Francesco Ferrari, Erica Larschan, Peter J. Park, William T. Pu
Software Mentions: 1
Published: about 10 years ago

10.1186/s13059-016-0956-6

A transcriptome-based global map of signaling pathways in the ovarian cancer microenvironment associated with clinical outcome
Cited by: 81
Author(s): Silke Reinartz, Florian Finkernagel, Till Adhikary, Verena Rohnalter, Tim Schumann, Yvonne Schober, Wolfgang Andreas Nockher, Andrea Nist, Thorsten Stiewe, Julia M. Jansen, Uwe Wagner, Sabine Müller‐Brüsselbach, Rolf Müller
Software Mentions: 1
Published: about 10 years ago

10.1186/s13059-016-0917-0

The real cost of sequencing: scaling computation to keep pace with data generation
Cited by: 259
Author(s): Paul Muir, Shantao Li, Shaoke Lou, Daifeng Wang, Daniel Spakowicz, Jing Zhang, George M. Weinstock, Farren J. Isaacs, Joel Rozowsky, Mark Gerstein
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0179567

A sorghum (Sorghum bicolor) mutant with altered carbon isotope ratio
Cited by: 4
Author(s): Govinda Rizal, Shanta Karki, Vivek Thakur, Samart Wanchana, Hugo Alonso-Cantabrana, Jacque Dionora, J. E. Sheehy, Robert T. Furbank, Susanne von Caemmerer, W. Paul Quick
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0195142

Surprisal analysis of genome-wide transcript profiling identifies differentially expressed genes and pathways associated with four growth conditions in the microalga Chlamydomonas
Cited by: 6
Author(s): Kenny A. Bogaert, Sheeba Santhini Manoharan-Basil, Emilie Perez, R. D. Levine, Françoise Remacle, Claire Remacle
Software Mentions: 1
Published: about 8 years ago

10.1186/s13059-016-0873-8

Long non-coding RNAs display higher natural expression variation than protein-coding genes in healthy humans
Cited by: 120
Author(s): Aleksandra E. Kornienko, Christoph P. Dotter, Philipp M. Guenzl, Heinz Gisslinger, Bettina Gisslinger, Ciara Cleary, Róbert Královics, Florian M. Pauler, Denise P. Barlow
Software Mentions: 1
Published: over 10 years ago

10.1186/s13059-015-0692-3

Single-cell mRNA sequencing identifies subclonal heterogeneity in anti-cancer drug responses of lung adenocarcinoma cells
Cited by: 218
Author(s): Kyu‐Tae Kim, Hye Won Lee, Hae‐Ock Lee, Sang Cheol Kim, Yun Jee Seo, Wingyan Chung, Hye Hyeon Eum, Do‐Hyun Nam, Junhyong Kim, Kyeung Min Joo, Woong-Yang Park
Software Mentions: 1
Published: about 11 years ago

10.1186/s13059-015-0608-2

Transcript and protein expression decoupling reveals RNA binding proteins and miRNAs as potential modulators of human aging
Cited by: 66
Author(s): Yuning Wei, Hai Hu, Gangcai Xie, Ning Fu, Zhibin Ning, Rong Zeng, Philipp Khaitovich
Software Mentions: 1
Published: over 11 years ago

10.1186/s13059-014-0451-x

Cfp1 is required for gene expression-dependent H3K4 trimethylation and H3K9 acetylation in embryonic stem cells
Cited by: 44
Author(s): Thomas Clouaire, Shaun Webb, Adrian Bird
Software Mentions: 1
Published: almost 12 years ago

10.1186/gb-2013-14-9-r107

Genome sequencing reveals fine scale diversification and reticulation history during speciation in Sus
Cited by: 132
Author(s): Laurent Frantz, Joshua G. Schraiber, Ole Madsen, Hendrik‐Jan Megens, Mirte Bosse, Yogesh Paudel, Gono Semiadi, Erik Meijaard, Ning Li, R.P.M.A. Crooijmans, Alan Archibald, Montgomery Slatkin, Lawrence B. Schook, Greger Larson, Martien A. M. Groenen
Software Mentions: 1
Published: over 13 years ago

10.7554/eLife.28652

Host proteostasis modulates influenza evolution
Cited by: 30
Author(s): Angela M Phillips, Luna O Gonzalez, Emmanuel E Nekongo, Anna I. Ponomarenko, Sean M. McHugh, Vincent Butty, Stuart S. Levine, Yu‐Shan Lin, Leonid A. Mirny, Matthew D. Shoulders
Software Mentions: 1
Published: almost 9 years ago

10.7554/eLife.59303

One-shot analysis of translated mammalian lncRNAs with AHARIBO
Cited by: 13
Author(s): L. Minati, Claudia Firrito, Alessia Del Piano, Alberto Peretti, Simone Sidoli, Daniele Peroni, Romina Belli, Francesco Gandolfi, Alessandro Romanel, Paola Bernabò, Jacopo Zasso, Alessandro Quattrone, Graziano Guella, Fabio Lauria, Gabriella Viero, Massimiliano Clamer
Software Mentions: 1
Published: over 5 years ago

10.1128/genomeA.00321-18

Genome Sequence of Australian Indigenous Wine Yeast Torulaspora delbrueckii COFT1 Using Nanopore Sequencing
Cited by: 10
Author(s): Federico Tondini, Vladimir Jiranek, Paul R. Grbin, Cristóbal A. Onetto
Software Mentions: 1
Published: about 8 years ago

10.3390/ijms22126478

Differential Regulation of Gonadotropins as Revealed by Transcriptomes of Distinct LH and FSH Cells of Fish Pituitary
Cited by: 15
Author(s): Lian Hollander-Cohen, Matan Golan, Berta Levavi‐Sivan
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0152405

Subtype-Selective Small Molecule Inhibitors Reveal a Fundamental Role for Nav1.7 in Nociceptor Electrogenesis, Axonal Conduction and Presynaptic Release
Cited by: 144
Author(s): Aristos J. Alexandrou, Adam R. Brown, Mark L. Chapman, Mark Estacion, Jamie Turner, Malgorzata A. Mis, Anna Wilbrey, Elizabeth C. Payne, Alex Gutteridge, Peter Cox, Rachel Doyle, David Printzenhoff, Zhixin Lin, Brian E. Marron, Christopher W. West, Nigel A. Swain, Richard Storer, Paul A. Stupple, Neil A. Castle, James A. Hounshell, Mirko Rivara, Andrew D. Randall, Sulayman D. Dib‐Hajj, Douglas S. Krafte, Stephen G. Waxman, Manoj K. Patel, Richard P. Butt, Edward B. Stevens
Software Mentions: 1
Published: over 10 years ago

10.1590/1678-4685-GMB-2019-0215

The combined analysis as the best strategy for Dual RNA-Seq mapping
Cited by: 5
Author(s): Eliandro Espindula, Edilena Reis Sperb, Evelise Bach, Luciane Maria Pereira Passaglia
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0100153

The Relationship between Therapeutic Alliance and Service User Satisfaction in Mental Health Inpatient Wards and Crisis House Alternatives: A Cross-Sectional Study
Cited by: 62
Author(s): Angela Sweeney, Sarah Fahmy, Fiona Nolan, Nicola Morant, Zoë Fox, Brynmor Lloyd‐Evans, David Osborn, Emma Burgess, Helen Gilburt, Rose McCabe, Mike Slade, Sonia Johnson
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0174436

Computational identifying and characterizing circular RNAs and their associated genes in hepatocellular carcinoma
Cited by: 16
Author(s): Yan Li, Yongcheng Dong, Ziyan Huang, Qifan Kuang, Yiming Wu, Yizhou Li, Menglong Li
Software Mentions: 1
Published: over 9 years ago

10.3390/genes12081107

Gene Expression Analysis Provides New Insights into the Mechanism of Intramuscular Fat Formation in Japanese Black Cattle
Cited by: 13
Author(s): Shuji Ueda, Mana Hosoda, Ken‐ichi Yoshino, Minoru Yamanoue, Yasuhito Shirai
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0141214

Identification and Characterization of Circular RNAs As a New Class of Putative Biomarkers in Human Blood
Cited by: 503
Author(s): Sebastian Memczak, Panagiotis Papavasileiou, Oliver Peters, Nikolaus Rajewsky
Software Mentions: 1
Published: over 10 years ago

10.7554/eLife.13374

Metabolic reprogramming during neuronal differentiation from aerobic glycolysis to neuronal oxidative phosphorylation
Cited by: 404
Author(s): Xinde Zheng, Leah Boyer, Mingji Jin, Jérôme Mertens, Yongsung Kim, Li Ma, Michael W. Hamm, Fred H. Gage, Tony Hunter
Software Mentions: 1
Published: about 10 years ago

10.3389/fimmu.2020.483296

ProTECT—Prediction of T-Cell Epitopes for Cancer Therapy
Cited by: 12
Author(s): Rao Av, Ada A. Madejska, Jacob Pfeil, Benedict Paten, Sofie R. Salama, David Haussler
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2021.672123

Gene Expression Profiling of Lymph Node Sub-Capsular Sinus Macrophages in Cancer
Cited by: 1
Author(s): Pellin Danilo, Natalie Claudio, Zihan Guo, Tahereh Ziglari, Ferdinando Pucci
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2021.669889

Immunologic Profiling of the Atlantic Salmon Gill by Single Nuclei Transcriptomics
Cited by: 13
Author(s): Alexander C. West, Yasutaka Mizoro, Shona H. Wood, Louise Ince, Marianne Iversen, Even H. Jørgensen, Torfinn Nome, Simen Rød Sandve, Samuel Martín, A. S. I. Loudon, David G. Hazlerigg
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0147823

Chamber Specific Gene Expression Landscape of the Zebrafish Heart
Cited by: 23
Author(s): Amarjeet Singh, Ambily Sivadas, Ankit Sabharwal, Shamsudheen Karuthedath Vellarikal, Rijith Jayarajan, Ankit Verma, Shruti Kapoor, Adita Joshi, Vinod Scaria, Sridhar Sivasubbu
Software Mentions: 1
Published: over 10 years ago

10.3390/ijms22136872

Sympathetic Denervation Alters the Inflammatory Response of Resident Muscularis Macrophages upon Surgical Trauma and Ameliorates Postoperative Ileus in Mice
Cited by: 9
Author(s): Shilpashree Mallesh, Reiner Schneider, Bianca Schneiker, Mariola Lysson, Patrik Efferz, Eaton Lin, Wouter J. de Jonge, Sven Wehner
Software Mentions: 1
Published: about 5 years ago

10.7554/eLife.65482

Scaled, high fidelity electrophysiological, morphological, and transcriptomic cell characterization
Cited by: 27
Author(s): Brian R. Lee, Agata Budzillo, Kristen Hadley, Jeremy A. Miller, Tim Jarsky, Katherine Baker, DiJon Hill, Lisa Kim, Rusty Mann, Lindsay Ng, Aaron Oldre, Ram Rajanbabu, Jessica Trinh, Sara Vargas, Thomas Braun, Rachel Dalley, Nathan W. Gouwens, Brian Kalmbach, Tae Kyung Kim, Kimberly A. Smith, Gilberto Soler-Llavina, Staci A. Sorensen, Bosiljka Tasic, Jonathan T. Ting, Ed Lein, Hongkui Zeng, Gabe J. Murphy, Jim Berg
Software Mentions: 1
Published: almost 5 years ago

10.3389/fimmu.2019.02081

Fasciola hepatica Infection in Cattle: Analyzing Responses of Peripheral Blood Mononuclear Cells (PBMC) Using a Transcriptomics Approach
Cited by: 24
Author(s): Garcia-Campos Andres, Carolina N. Correia, Amalia Naranjo‐Lucena, Laura Garza‐Cuartero, Gabriella Farries, John A. Browne, David E. MacHugh, Grace Mulcahy
Software Mentions: 1
Published: almost 7 years ago

10.2196/10875

Electronic Systems for Patients to Report and Manage Side Effects of Cancer Treatment: Systematic Review
Cited by: 110
Author(s): Lorraine Warrington, Kate Absolom, Mark Conner, Ian Kellar, Beverly Clayton, Michael Ayres, Galina Velikova
Software Mentions: 1
Published: over 7 years ago

10.3389/fimmu.2020.01204

Ischemia Reperfusion Injury Triggers CXCL13 Release and B-Cell Recruitment After Allogenic Kidney Transplantation
Cited by: 17
Author(s): Kirill Kreimann, Mi-Sun Jang, Song Rong, Robert Greite, Sibylle von Vietinghoff, Roland Schmitt, Jan Hinrich Bräsen, Lena Schiffer, Jessica Gerstenberg, Vijith Vijayan, Oliver Dittrich–Breiholz, Li Wang, Christian M. Karsten, Wilfried Gwinner, Hermann Haller, Stephan Immenschuh, Faikah Gueler
Software Mentions: 1
Published: almost 6 years ago

10.3389/fimmu.2018.02303

Silencing the CSF-1 Axis Using Nanoparticle Encapsulated siRNA Mitigates Viral and Autoimmune Myocarditis
Cited by: 25
Author(s): Ingmar Soeren Meyer, Carl Christoph Goetzke, Meike Kespohl, Martina Sauter, Arnd Heuser, Volker Eckstein, Hans‐Peter Vornlocher, Daniel G. Anderson, Jan Haas, Benjamin Meder, Hugo A. Katus, Karin Klingel, Antje Beling, Florian Leuschner
Software Mentions: 1
Published: over 7 years ago

10.7554/eLife.09207

SPOP mutation leads to genomic instability in prostate cancer
Cited by: 142
Author(s): Gunther Boysen, Christopher E. Barbieri, Davide Prandi, Mirjam Blattner, Sung-Suk Chae, Arun Dahija, Srilakshmi Nataraj, Dennis Huang, Clarisse Marotz, Limei Xu, Julie Huang, Paola Lecca, Sagar Chhangawala, Liu D, Pengbo Zhou, Andrea Sboner, Johann S. de Bono, Francesca Demichelis, Yariv Houvras, Mark A. Rubin
Software Mentions: 1
Published: almost 11 years ago

10.3389/fimmu.2020.01039

Aire Gene Influences the Length of the 3′ UTR of mRNAs in Medullary Thymic Epithelial Cells
Cited by: 1
Author(s): Érika Arantes de Oliveira, Amanda Freire Assis, César A. Speck-Hernández, Max Jordan Duarte, Geraldo A. S. Passos
Software Mentions: 1
Published: about 6 years ago

10.3389/fimmu.2020.609337

Tumor Microenvironment Status Predicts the Efficacy of Postoperative Chemotherapy or Radiochemotherapy in Resected Gastric Cancer
Cited by: 8
Author(s): Ran Duan, Xiaoqin Li, Dongqiang Zeng, Xiaofeng Chen, Bo Shen, Dongqin Zhu, Lei Zhu, Yangyang Yu, Deqiang Wang
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2021.727941

A Novel Bifunctional Fusion Protein, Vunakizumab-IL22, for Protection Against Pulmonary Immune Injury Caused by Influenza Virus
Cited by: 6
Author(s): Ling Han, Chenchen Shi, Xian Zeng, Lifeng Cen, Xiaobin Mei, Jiajun Fan, Dianwen Ju, Haiyan Zhu
Software Mentions: 1
Published: almost 5 years ago

10.3389/fimmu.2021.687579

Transcriptomic Analysis of Ovine Hepatic Lymph Node Following Fasciola hepatica Infection – Inhibition of NK Cell and IgE-Mediated Signaling
Cited by: 8
Author(s): Amalia Naranjo‐Lucena, Carolina N. Correia, Verónica Molina-Hernández, Á. Martínez-Moreno, John A. Browne, J. Pérez, David E. MacHugh, Grace Mulcahy
Software Mentions: 1
Published: about 5 years ago

10.3390/ijms22137002

Sex-Based Differences in Cardiac Gene Expression and Function in BDNF Val66Met Mice
Cited by: 1
Author(s): Marcus Negron, Jeffrey Kristensen, Van Thuan Nguyen, Lauren E Gansereit, F Raucci, Julia L Chariker, Aaron Heck, Imamulhaq Brula, Gabrielle Kitchen, Cassandra P. Awgulewitsch, Lin Zhong, Eric C. Rouchka, Simran Banga, Cristi L. Galindo
Software Mentions: 1
Published: about 5 years ago

10.3389/fimmu.2020.00450

ANP32B Deficiency Protects Mice From Lethal Influenza A Virus Challenge by Dampening the Host Immune Response
Cited by: 11
Author(s): Sebastian Beck, Martin Zickler, Vinícius Pinho dos Reis, Thomas Günther, Adam Grundhoff, Patrick T. Reilly, Tak W. Mak, Stephanie Stanelle-Bertram, Gülşah Gabriel
Software Mentions: 1
Published: over 6 years ago

10.3389/fimmu.2021.728082

Brd4 Regulates the Homeostasis of CD8+ T-Lymphocytes and Their Proliferation in Response to Antigen Stimulation
Cited by: 3
Author(s): Zhilin Peng, Yiwen Zhang, Xiancai Ma, Mo Zhou, Shiyu Wu, Sifa Zheng, Yuhong Yuan, Yingshi Chen, Yuzhuang Li, Guanwen Wang, Feng Huang, Yidan Qiao, Baijing Xia, Weiwei Liu, Jun Li, Xu Zhang, Xin He, Ting Pan, Hanshi Xu, Hui Zhang
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0078586

Rapid Kill—Novel Endodontic Sealer and Enterococcus faecalis
Cited by: 27
Author(s): Nurit Beyth, Dana Kesler Shvero, Nathan Zaltsman, Yael Houri‐Haddad, Itzhak Abramovitz, Michael Perez Davidi, Ervin I. Weiss
Software Mentions: 1
Published: over 12 years ago

10.7554/eLife.47702

The alternative regenerative strategy of bearded dragon unveils the key processes underlying vertebrate tooth renewal
Cited by: 22
Author(s): Lotta Salomies, Julia Eymann, Imran Khan, Nicolas Di-Poı̈
Software Mentions: 1
Published: almost 7 years ago

10.7554/eLife.47098

Evidence for DNA-mediated nuclear compartmentalization distinct from phase separation
Cited by: 204
Author(s): David McSwiggen, Anders S. Hansen, Sheila S Teves, Hervé Marie-Nelly, Yvonne Hao, Alec Heckert, Dinesh Vyas, Claire Dugast-Darzacq, Robert Tjian, Xavier Darzacq
Software Mentions: 1
Published: about 7 years ago

10.3389/fimmu.2017.00682

Distinct Transcriptional and Alternative Splicing Signatures of Decidual CD4+ T Cells in Early Human Pregnancy
Cited by: 27
Author(s): Weihong Zeng, Zhicui Liu, Xinmei Liu, Siming Zhang, Asma Khanniche, Ying Zheng, Xiaoling Ma, Tiantian Yu, Fu‐Ju Tian, Xiao-Rui Liu, Jianxia Fan, Yi Lin
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0221109

Antibiotic treatment of Chlamydia-induced cystitis in the koala is linked to expression of key inflammatory genes in reactive oxygen pathways
Cited by: 5
Author(s): Samuel Phillips, Bonnie Chaban, Ammar Aziz, Wendy Bergen, Rosemary Booth, Michael Pyne, Peter Timms
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0177340

Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection
Cited by: 52
Author(s): Dagmara W. Lewandowska, Peter W. Schreiber, Macé M. Schuurmans, Bettina Ruehe, Osvaldo Zagordi, Cornelia Bayard, Michael Greiner, Fabienne D. Geissberger, Riccarda Capaul, Andrea Zbinden, Jürg Böni, Christian Benden, Nicolas J. Mueller, Alexandra Trkola, Michael Huber
Software Mentions: 1
Published: about 9 years ago

10.2196/14953

The Potential for the Internet and Telehealth in Caregiver Support. Comment on “Using Technology to Facilitate Fidelity Assessments: The Tele-STAR Caregiver Intervention”
Cited by: 0
Author(s): Kohei Kajiwara, Jun Kako, Hiromitsu Noto, Yasufumi Oosono, Masamitsu Kobayashi
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0129183

Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses
Cited by: 104
Author(s): Shamsuzzoha Bayzid, Siavash Mirarab, Bastien Boussau, Tandy Warnow
Software Mentions: 1
Published: about 11 years ago

10.7554/eLife.59166

Metabolic but not transcriptional regulation by PKM2 is important for natural killer cell responses
Cited by: 17
Author(s): Jessica Walls, Jeffrey Subleski, Erika M. Palmieri, Marieli Gonzalez-Cotto, Clair M. Gardiner, Daniel W. McVicar, David K. Finlay
Software Mentions: 1
Published: almost 6 years ago

10.3389/fimmu.2018.00964

Aire Disruption Influences the Medullary Thymic Epithelial Cell Transcriptome and Interaction With Thymocytes
Cited by: 19
Author(s): César A. Speck-Hernández, Amanda Freire Assis, Rafaela F. Felicio, Larissa Cotrim-Sousa, Nicole Pezzi, Gabriel Sarti Lopes, Karina Fittipaldi Bombonato-Prado, Silvana Giuliatti, Geraldo Aleixo Silva Passos
Software Mentions: 1
Published: about 8 years ago

10.3389/fimmu.2019.01949

Functional Annotation of Genetic Loci Associated With Sepsis Prioritizes Immune and Endothelial Cell Pathways
Cited by: 13
Author(s): Kieu Le, Vasiliki Matzaraki, Mihai G. Netea, Cisca Wijmenga, Jill Moser, Vinod Kumar
Software Mentions: 1
Published: almost 7 years ago

10.7554/eLife.49117

The endonuclease Cue2 cleaves mRNAs at stalled ribosomes during No Go Decay
Cited by: 132
Author(s): Karole N. D’Orazio, Colin Chih-Chien Wu, Niladri K. Sinha, Raphaël Loll-Krippleber, Grant W. Brown, Rachel Green
Software Mentions: 1
Published: about 7 years ago

10.3389/fimmu.2020.628923

Human IgA-Expressing Bone Marrow Plasma Cells Characteristically Upregulate Programmed Cell Death Protein-1 Upon B Cell Receptor Stimulation
Cited by: 6
Author(s): Annika Wiedemann, Marie Lettau, Ina Wirries, Annemarie Jungmann, Abdulrahman Salhab, Gilles Gasparoni, Henrik E. Mei, Carsten Perka, Jörn Walter, Andreas Radbruch, Andreia C. Lino, Thomas Dörner
Software Mentions: 1
Published: over 5 years ago

10.3389/fimmu.2017.01938

B Cell-Intrinsic Role for IRF5 in TLR9/BCR-Induced Human B Cell Activation, Proliferation, and Plasmablast Differentiation
Cited by: 40
Author(s): Saurav De, Baohong Zhang, Tiffany Shih, Sukhwinder Singh, Aaron Winkler, Robert Donnelly, Betsy J. Barnes
Software Mentions: 1
Published: over 8 years ago

10.3389/fimmu.2019.03118

Qualitative Changes in Cortical Thymic Epithelial Cells Drive Postpartum Thymic Regeneration
Cited by: 4
Author(s): Maude Dumont-Lagacé, Tariq Daouda, Lucyle Depoërs, Jérémie Zumer, Yahya Benslimane, Sylvie Brochu, Lea Harrington, Sébastien Lemieux, Claude Perreault
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2019.00218

Whole-Genome Resequencing Identifies KIT New Alleles That Affect Coat Color Phenotypes in Pigs
Cited by: 16
Author(s): Zhongping Wu, Danying Zheng, Min Huang, Yong Hou, Hui Zhang, Hao Chen, Jun Ren
Software Mentions: 1
Published: over 7 years ago

10.3389/fgene.2021.627623

Whole-Blood Transcriptome Analysis of Feedlot Cattle With and Without Bovine Respiratory Disease
Cited by: 13
Author(s): Janelle A. Jiminez, Edouard Timsit, Karin Orsel, Frank van der Meer, Le Luo Guan, Graham Plastow
Software Mentions: 1
Published: over 5 years ago

10.3389/fgene.2019.01394

Systematically Dissecting the Function of RNA-Binding Proteins During Glioma Progression
Cited by: 6
Author(s): Jianjun Wang, Jianfeng Qi, Xuben Hou
Software Mentions: 1
Published: over 6 years ago

10.7554/eLife.53404

YAP regulates cell size and growth dynamics via non-cell autonomous mediators
Cited by: 28
Author(s): Douaa Mugahid, Marian Kalocsay, Xili Liu, Jonathan Scott Gruver, Leonid Peshkin, Marc W. Kirschner
Software Mentions: 1
Published: over 6 years ago

10.3389/fgene.2020.557341

Deletion of FUNDC2 and CMC4 on Chromosome Xq28 Is Sufficient to Cause Hypergonadotropic Hypogonadism in Men
Cited by: 6
Author(s): Xinxian Deng, Fang He, Asha Pathak, Angela M Zou, Whitney Neufeld-Kaiser, Emily A. Malouf, Richard A Failor, Fuki M. Hisama, Yajuan J. Liu
Software Mentions: 1
Published: almost 6 years ago

10.7554/eLife.45418

Neural crest-specific deletion of Rbfox2 in mice leads to craniofacial abnormalities including cleft palate
Cited by: 20
Author(s): Dasan Mary Cibi, Masum M. Mia, Shamini Guna Shekeran, Lim Sze Yun, Reddemma Sandireddy, Priyanka Gupta, Monalisa Hota, Li Sun, Sujoy Ghosh, Manvendra K. Singh
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0134958

A Biochemical Approach to Understand the Pathogenesis of Advanced Pulmonary Arterial Hypertension: Metabolomic Profiles of Arginine, Sphingosine-1-Phosphate, and Heme of Human Lung
Cited by: 38
Author(s): Yidan Zhao, Lei Chu, Kathleen Watson Lin, Elise Granton, Li Yin, Jiming Peng, Michael Hsin, Licun Wu, Amy Yu, Thomas K. Waddell, Shaf Keshavjee, John Granton, Marc de Perrot
Software Mentions: 1
Published: almost 11 years ago