pypi: multiqc | Projects | Ecosyste.ms: Papers

10.1038/s42003-021-02335-3

A de novo transcriptional atlas in Danaus plexippus reveals variability in dosage compensation across tissues
Cited by: 9
Author(s): José M. Ranz, Pablo M. González, Bryan D. Clifton, Nestor O. Nazario-Yepiz, Pablo Luis Hernández-Cervantes, María J. Palma-Martínez, Dulce I. Valdivia, Andrés Jiménez-Kaufman, Megan Lu, Therese A. Markow, Cei Abreu‐Goodger
Software Mentions: 13
Published: over 3 years ago

10.1016/j.xpro.2021.100397

Protocol for comprehensive RNA sequencing analysis of murine long non-coding RNAs during aging
Cited by: 0
Author(s): Xinyue Lu, Qi Zhou, Jin Liu, Li Sun
Software Mentions: 11
Published: over 3 years ago

10.1186/s13059-021-02360-9

Role of epigenetics in unicellular to multicellular transition in Dictyostelium
Cited by: 8
Author(s): Simon Yuan Wang, Elizabeth A. Pollina, I‐Hao Wang, Lindsay K. Pino, Henry L. Bushnell, Ken Takashima, Colette Fritsche, George Sabin, Benjamin A. Garcia, Paul L. Greer, Eric Lieberman Greer
Software Mentions: 10
Published: over 3 years ago

10.1371/journal.ppat.1007945

Cryptococcus neoformans resists to drastic conditions by switching to viable but non-culturable cell phenotype
Cited by: 28
Author(s): Bernd Hommel, Aude Sturny-Leclère, Stevenn Volant, Nathanaël Veluppillai, Magalie Duchateau, Chen-Hsin Albert Yu, Véronique Hourdel, Hugo Varet, Mariette Matondo, John R. Perfect, Arturo Casadevall, Françoise Dromer, Alexandre Alanio
Software Mentions: 10
Published: over 5 years ago

10.3390/cancers13061212

Comparison of Structural and Short Variants Detected by Linked-Read and Whole-Exome Sequencing in Multiple Myeloma
Cited by: 3
Author(s): Ashwini Kumar, Sadiksha Adhikari, Matti Kankainen, Caroline A. Heckman
Software Mentions: 8
Published: over 3 years ago

10.3389/fcimb.2021.733619

Antigen Presenting Cells Link the Female Genital Tract Microbiome to Mucosal Inflammation, With Hormonal Contraception as an Additional Modulator of Inflammatory Signatures
Cited by: 8
Author(s): Elizabeth H. Byrne, M Fărcăşanu, Seth M. Bloom, Nondumiso Xulu, Jiawu Xu, Barry L. Hykes, Nomfuneko A. Mafunda, Matthew R. Hayward, Mary Dong, Krista Dong, Thandeka Gumbi, Fransisca Xolisile Ceasar, Nasreen Ismail, Thumbi Ndung’u, Christina Gosmann, Musie Ghebremichael, Scott A. Handley, Caroline Mitchell, Alexandra Chloé Villani, Douglas S. Kwon
Software Mentions: 7
Published: about 3 years ago

10.1371/journal.pone.0218636

Characterizing the postmortem human bone microbiome from surface-decomposed remains
Cited by: 23
Author(s): Alexandra L. Emmons, Amy Z. Mundorff, Sarah W. Keenan, Jonathan Davoren, Janna M. Andronowski, David Carter, Jennifer M. DeBruyn
Software Mentions: 7
Published: over 4 years ago

10.1002/1873-3468.13278

The gut microbiome participates in transgenerational inheritance of low‐temperature responses in <i>Drosophila melanogaster</i>
Cited by: 23
Author(s): Aman Zare, Anna-Mia Johansson, Edvin Karlsson, Nicolas Delhomme, Per Stenberg
Software Mentions: 7
Published: about 6 years ago

10.1186/s40168-020-00943-5

Roundup causes embryonic development failure and alters metabolic pathways and gut microbiota functionality in non-target species
Cited by: 26
Author(s): Antonio Suppa, Jouni Kvist, Xiaojing Li, Vignesh Dhandapani, Hanan Almulla, Antoine Y. Tian, Stephen Kissane, Jian Zhou, Alessio Perotti, Hayley Mangelson, Kyle W. Langford, Valeria Rossi, James B. Brown, Luisa Orsini
Software Mentions: 6
Published: almost 4 years ago

10.1093/gigascience/giy158

Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes
Cited by: 51
Author(s): Lisa K. Johnson, Harriet Alexander, C. Titus Brown
Software Mentions: 6
Published: almost 6 years ago

10.1111/mec.15047

Caste‐ and pesticide‐specific effects of neonicotinoid pesticide exposure on gene expression in bumblebees
Cited by: 53
Author(s): Thomas J. Colgan, Isabel Fletcher, Andres N. Arce, Richard J. Gill, Ana Ramos Rodrigues, Eckart Stolle, Lars Chittka, Yannick Wurm
Software Mentions: 6
Published: over 5 years ago

10.1186/s40168-017-0279-1

A novel ultra high-throughput 16S rRNA gene amplicon sequencing library preparation method for the Illumina HiSeq platform
Cited by: 79
Author(s): Eric J. de Muinck, Pål Trosvik, Gregor D. Gilfillan, Johannes R. Hov, Arvind Sundaram
Software Mentions: 5
Published: over 7 years ago

10.1093/gbe/evab110

Transcriptomic Analysis of Skin Color in Anole Lizards
Cited by: 5
Author(s): Pietro Longo Hollanda de Mello, Paul M Hime, Richard E. Glor
Software Mentions: 5
Published: over 3 years ago

10.3389/fmicb.2021.641756

Chemotranscriptomic Profiling Defines Drug-Specific Signatures of the Glycopeptide Antibiotics Dalbavancin, Vancomycin and Chlorobiphenyl-Vancomycin in a VanB-Type-Resistant Streptomycete
Cited by: 0
Author(s): Andrew Hesketh, Giselda Bucca, Colin P. Smith, Hee‐Jeon Hong
Software Mentions: 4
Published: over 3 years ago

10.3389/fgene.2020.556418

Transcriptional Programs Underlying Cold Acclimation of Common Carp (Cyprinus carpio L.)
Cited by: 14
Author(s): Yong Long, Xixi Li, Fengyang Li, Guodong Ge, Ran Liu, Guangliang Song, Qing Li, Zhengxue Qiao
Software Mentions: 4
Published: about 4 years ago

10.1093/ve/vey027

Whole genome analysis of local Kenyan and global sequences unravels the epidemiological and molecular evolutionary dynamics of RSV genotype ON1 strains
Cited by: 24
Author(s): James R. Otieno, Everlyn Kamau, John W Oketch, Joyce M. Ngoi, Alex Gichuki, Špela Binter, Grieven P. Otieno, Mwanajuma Ngama, Charles N. Agoti, Patricia A. Cane, Paul Kellam, Matthew Cotten, Philippe Lemey, D. James Nokes
Software Mentions: 4
Published: over 6 years ago

10.3390/cancers12123738

Widespread Aberrant Alternative Splicing despite Molecular Remission in Chronic Myeloid Leukaemia Patients
Cited by: 9
Author(s): Ulf Schmitz, Jaynish S. Shah, Bijay Dhungel, Geoffray Monteuuis, Phuc-Loi Luu, Veronika Petrova, Cynthia Metierre, Shalima S. Nair, Charles G. Bailey, Verity A. Saunders, Ali G. Turhan, Deborah L. White, Susan Branford, Susan J. Clark, Timothy P. Hughes, Justin Wong, John E.J. Rasko
Software Mentions: 4
Published: almost 4 years ago

10.18632/oncotarget.26029

Identification of a novel gene fusion in ALT positive osteosarcoma
Cited by: 27
Author(s): Emily Mason-Osann, Anqi Dai, Jess Floro, Ying Jie Lock, Matthew Reiss, Himabindu Gali, Adeline Matschulat, Adam Labadorf, Rachel Litman Flynn
Software Mentions: 3
Published: about 6 years ago

10.1371/journal.pntd.0008059

Exposure of Anopheles mosquitoes to trypanosomes reduces reproductive fitness and enhances susceptibility to Plasmodium
Cited by: 10
Author(s): Constentin Dieme, Natalia Marta Zmarlak, Emma Brito-Fravallo, Christelle Travaillé, Adrien Pain, Floriane Cherrier, Corinne Genève, Estefanía Calvo-Álvarez, Michelle M. Riehle, Kenneth D. Vernick, Brice Rotureau, Christian Mitri
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pntd.0009658

Describing the intestinal microbiota of Holstein Fasciola-positive and -negative cattle from a hyperendemic area of fascioliasis in central Colombia
Cited by: 5
Author(s): Angie Ramírez, Giovanny Herrera, Marina Muñoz, Laura Vega, Lissa Cruz-Saavedra, Diego García-Corredor, Martín Orlando Pulido-Medellín, Diana María Bulla-Castañeda, Julio César Giraldo, María Consuelo Bernal, José Fernández-Manrique, Luis R. Vásquez-Arteaga, Juan David Ramírez
Software Mentions: 3
Published: over 3 years ago

10.3389/fbioe.2021.640419

Extracellular Vesicles Derived From Adult and Fetal Bone Marrow Mesenchymal Stromal Cells Differentially Promote ex vivo Expansion of Hematopoietic Stem and Progenitor Cells
Cited by: 8
Author(s): Corina Adriana Ghebes, Jess Morhayim, Marion Kleijer, Merve Koroglu, Stefan J. Erkeland, Remco M. Hoogenboezem, Eric Bindels, Floris P.J. van Alphen, Maartje van den Biggelaar, Martijn A. Nolte, Bram C. J. van der Eerden, Eric Braakman, Carlijn Voermans, Jeroen van de Peppel
Software Mentions: 3
Published: over 3 years ago

10.3389/fgene.2021.658256

De novo Genome Assembly of the Raccoon Dog (Nyctereutes procyonoides)
Cited by: 8
Author(s): Luis J. Chueca, Judith Kochmann, Tilman Schell, Carola Greve, Axel Janke, Markus Pfenninger, Sven Klimpel
Software Mentions: 3
Published: over 3 years ago

10.3389/fmicb.2021.662727

Side Effects of Pesticides and Metabolites in Groundwater: Impact on Denitrification
Cited by: 22
Author(s): Caroline Michel, Nicole Baran, Laurent André, Mickaël Charron, Catherine Joulian
Software Mentions: 3
Published: over 3 years ago

10.1038/s41597-020-0519-2

Systems biology of acidophile biofilms for efficient metal extraction
Cited by: 7
Author(s): Antoine Buetti‐Dinh, Malte Herold, Stephan Christel, Mohamed El Hajjami, Sören Bellenberg, Olga Ilie, Paul Wilmes, Ansgar Poetsch, Wolfgang Sand, Mario Vera, Igor V. Pivkin, Mark Dopson
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-018-24701-8

A compendium of long non-coding RNAs transcriptional fingerprint in multiple myeloma
Cited by: 33
Author(s): Domenica Ronchetti, Luca Agnelli, Alessandro Pietrelli, Katia Todoerti, Martina Manzoni, Elisa Taìana, Antonino Neri
Software Mentions: 3
Published: over 6 years ago

10.1186/s40425-019-0794-7

Longitudinal immune characterization of syngeneic tumor models to enable model selection for immune oncology drug discovery
Cited by: 54
Author(s): Molly A. Taylor, Adina Hughes, Josephine Walton, Anna M.L. Coenen-Stass, Łukasz Magiera, Lorraine Mooney, Sigourney Bell, Anna D. Staniszewska, Linda C. Sandin, Simon T. Barry, Amanda Watkins, Larissa S. Carnevalli, Elizabeth Hardaker
Software Mentions: 3
Published: almost 5 years ago

10.1016/j.molcel.2019.07.010

SLX4IP Antagonizes Promiscuous BLM Activity during ALT Maintenance
Cited by: 60
Author(s): Stephanie Panier, Marija Marić, Graeme Hewitt, Emily Mason-Osann, Himabindu Gali, Anqi Dai, Adam Labadorf, Jean-Hugues Guervilly, Philip Ruis, Sandra Segura-Bayona, Ondrej Beláň, Paulina Marzec, Patrick Gaillard, Rachel Litman Flynn, Simon J. Boulton
Software Mentions: 2
Published: about 5 years ago

10.1530/EJE-19-0771

High frequency of pathogenic ACAN variants including an intragenic deletion in selected individuals with short stature
Cited by: 20
Author(s): Lana Stavber, Tinka Hovnik, Primož Kotnik, Luca Lovrečić, Jernej Kovač, Tine Tesovnik, Sara Bertok, Klemen Dovč, Maruša Debeljak, Tadej Battelino, Magdalena Avbelj Stefanija
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.ppat.1008326

CRISPR/Cas with ribonucleoprotein complexes and transiently selected telomere vectors allows highly efficient marker-free and multiple genome editing in Botrytis cinerea
Cited by: 44
Author(s): Thomas Leisen, Fabian Bietz, J. Werner, Alex Wegner, Ulrich Schaffrath, David Scheuring, Felix Willmund, Andreas Mosbach, Gabriel Scalliet, Matthias Hahn
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms21218381

Comparative Transcriptome Analysis of Rutabaga (Brassica napus) Cultivars Indicates Activation of Salicylic Acid and Ethylene-Mediated Defenses in Response to Plasmodiophora brassicae
Cited by: 16
Author(s): Qiaoxia Zhou, Leonardo Galindo‐González, Victor P. Manolii, Sheau‐Fang Hwang, Stephen E. Strelkov
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-019-41235-9

In situ 10-cell RNA sequencing in tissue and tumor biopsy samples
Cited by: 24
Author(s): Shambhavi Singh, Lixin Wang, Dylan L. Schaff, Matthew D. Sutcliffe, Alexander F. Koeppel, Jung-Eun Kim, Suna Önengüt-Gümüşcü, Kwon-Sik Park, Hui Zong, Kevin A. Janes
Software Mentions: 2
Published: over 5 years ago

10.1126/science.abe6230

Structure-guided multivalent nanobodies block SARS-CoV-2 infection and suppress mutational escape
Cited by: 271
Author(s): Paul Koenig, Hrishikesh Das, Hejun Liu, Beate M. Kümmerer, Florian N. Gohr, Lea-Marie Jenster, Lisa Dominica Jacoba Schiffelers, Yonas Mehari Tesfamariam, Miki Uchima, Jennifer Deborah Wuerth, Karl Gatterdam, Natalia Ruétalo, Maria H Christensen, Caroline I. Fandrey, Sabine Normann, Jan M. P. Tödtmann, Steffen Pritzl, Leo Hanke, Jannik Boos, Meng Yuan, Xueyong Zhu, Jonathan L. Schmid-Burgk, Hiroki Kato, Michael Schindler, Ian A. Wilson, Matthias Geyer, Kerstin U. Ludwig, Bengt Hållberg, Nicholas C. Wu, Florian I. Schmidt
Software Mentions: 2
Published: almost 4 years ago

10.1186/s13195-020-00627-0

Differential blood miRNA expression in brain amyloid imaging-defined Alzheimer’s disease and controls
Cited by: 28
Author(s): Helen Zong Ying Wu, Anbupalam Thalamuthu, Lesley Cheng, Christopher Fowler, Colin L. Masters, Perminder S. Sachdev, Karen A. Mather
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.52676

Identification of a molecular basis for the juvenile sleep state
Cited by: 14
Author(s): Leela Chakravarti Dilley, Milán Szuperák, Naihua N. Gong, Charlette E. Williams, Ricardo Linares-Saldana, David S. Garbe, Mubarak Hussain Syed, Rajan Jain, Matthew S. Kayser
Software Mentions: 2
Published: over 4 years ago

10.3389/fmicb.2020.00773

NtrBC Regulates Invasiveness and Virulence of Pseudomonas aeruginosa During High-Density Infection
Cited by: 18
Author(s): Morgan A. Alford, Arjun Baghela, Amy Yeung, Daniel Pletzer, Robert E. W. Hancock
Software Mentions: 2
Published: over 4 years ago

10.1186/s40168-020-00796-y

Can rumen bacteria communicate to each other?
Cited by: 33
Author(s): Miyoung Won, Linda Oyama, Stephen J. Courtney, Christopher J. Creevey, Sharon Huws
Software Mentions: 1
Published: over 4 years ago

10.18632/oncotarget.21774

Altered microRNA profiles during early colon adenoma progression in a porcine model of familial adenomatous polyposis
Cited by: 13
Author(s): Monika Stachowiak, Tatiana Flisikowska, Stefan Bauersachs, Carolin Perleberg, Hubert Pausch, M. Świtoński, Alexander Kind, Dieter Saur, Angelika Schnieke, Krzysztof Flisikowski
Software Mentions: 1
Published: about 7 years ago

Ecosyste.ms: Papers

Projects: pypi: multiqc

Papers Mentioning multiqc 37