pypi: sam | Projects | Ecosyste.ms: Papers

10.1371/journal.pone.0183417

Association of gene expression with biomass content and composition in sugarcane
Cited by: 23
Author(s): Nam V. Hoang, Agnelo Furtado, Angela O'Keeffe, Frederik C. Botha, Robert J. Henry
Software Mentions: 15
Published: about 7 years ago

10.1371/journal.pcbi.1000071

Discovering Sequence Motifs with Arbitrary Insertions and Deletions
Cited by: 296
Author(s): Martin C. Frith, Neil F. W. Saunders, Boštjan Kobe, Timothy L. Bailey
Software Mentions: 6
Published: over 16 years ago

10.3390/v13081647

Monitoring SARS-CoV-2 Populations in Wastewater by Amplicon Sequencing and Using the Novel Program SAM Refiner
Cited by: 25
Author(s): Devon A. Gregory, Chris G. Wieberg, Jeff Wenzel, Chung‐Ho Lin, Marc C. Johnson
Software Mentions: 5
Published: about 3 years ago

10.3390/insects11110783

Colony-Level Effects of Amygdalin on Honeybees and Their Microbes
Cited by: 5
Author(s): James P. Tauber, Cansu Özge Tozkar, Ryan S. Schwarz, Dawn Lopez, Rebecca E. Irwin, Lynn S. Adler, Jay D. Evans
Software Mentions: 5
Published: almost 4 years ago

10.1111/mec.12833

Fine-scale population epigenetic structure in relation to gastrointestinal parasite load in red grouse (Lagopus lagopus scotica)
Cited by: 52
Author(s): Marius Wenzel, Stuart B. Piertney
Software Mentions: 5
Published: over 10 years ago

10.3390/cancers11101437

Astrogliosis Releases Pro-Oncogenic Chitinase 3-Like 1 Causing MAPK Signaling in Glioblastoma
Cited by: 28
Author(s): Julian Wurm, Sidney Behringer, Vidhya Ravi, Kevin Joseph, Nicolas Neidert, Julian P Maier, Roberto Doria-Medina, Marie Follo, Daniel Delev, Dietmar Pfeifer, Jürgen Beck, Roman Sankowski, Oliver Schnell, Dieter Henrik Heiland
Software Mentions: 4
Published: about 5 years ago

10.1111/jbi.12171

Community phylogenetics at the biogeographical scale: cold tolerance, niche conservatism and the structure of North American forests
Cited by: 120
Author(s): Bradford A. Hawkins, Marta Pacheco Rueda, Thiago F. Rangel, Richard Field, José Alexandre Felizola Diniz‐Filho
Software Mentions: 4
Published: over 11 years ago

10.1016/j.cels.2015.01.001

Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics
Cited by: 239
Author(s): Ebrahim Afshinnekoo, Cem Meydan, Shanin Chowdhury, Dyala Jaroudi, Collin Boyer, Nick Bernstein, Julia M. Maritz, Darryl Reeves, Jorge Gandara, Sagar Chhangawala, Sofia Ahsanuddin, Amber Simmons, Timothy Nessel, Bharathi Sundaresh, Elizabeth Pereira, Ellen Jorgensen, Sergios‐Orestis Kolokotronis, Nell Kirchberger, Isaac Garcia, David R. Gandara, Sean Dhanraj, Tanzina Nawrin, Yogesh Saletore, Noah Alexander, Priyanka Vijay, Elizabeth Hénaff, Paul Zumbo, Michael Walsh, Gregory D. O’Mullan, Scott Tighe, Joel T. Dudley, Anya Dunaif, Sean Ennis, Eoghan O'Halloran, Tiago R. Magalhães, Braden Boone, Angela L. Jones, Theodore R. Muth, Katie Schneider Paolantonio, Elizabeth Alter, Eric E. Schadt, Jeanne Garbarino, Robert J. Prill, Jane M. Carlton, Shawn Levy, Christopher E. Mason
Software Mentions: 4
Published: over 9 years ago

10.1186/1471-2105-11-465

Parallel multiplicity and error discovery rate (EDR) in microarray experiments
Cited by: 4
Author(s): Wayne Xu, Clay J. Carter
Software Mentions: 4
Published: about 14 years ago

10.1186/1471-2105-14-236

svapls: an R package to correct for hidden factors of variability in gene expression studies
Cited by: 3
Author(s): Sutirtha Chakraborty, Somnath Datta, Susmita Datta
Software Mentions: 3
Published: over 11 years ago

10.1371/journal.pone.0238907

A new advanced in silico drug discovery method for novel coronavirus (SARS-CoV-2) with tensor decomposition-based unsupervised feature extraction
Cited by: 33
Author(s): Y-h. Taguchi, Turki Turki
Software Mentions: 3
Published: about 4 years ago

10.1371/journal.pone.0015595

A Novel Statistical Algorithm for Gene Expression Analysis Helps Differentiate Pregnane X Receptor-Dependent and Independent Mechanisms of Toxicity
Cited by: 8
Author(s): M. Ann Mongan, Robert T. Dunn, Steven Vonderfecht, Nancy E. Everds, Guang Chen, Cheng Su, Marnie Higgins-Garn, Yuan Chen, Cynthia A. Afshari, Toni Williamson, Linda L. Carlock, Christopher DiPalma, Suzanne T. Moss, Jeanine L. Bussiere, Charles W. Qualls, Yudong He, Hisham K. Hamadeh
Software Mentions: 3
Published: almost 14 years ago

10.1371/journal.pone.0076935

Evaluation of Alignment Algorithms for Discovery and Identification of Pathogens Using RNA-Seq
Cited by: 36
Author(s): Ivan Borozan, Stuart Watt, Vincent Ferretti
Software Mentions: 3
Published: about 11 years ago

10.3389/fgene.2015.00139

Transposon insertion mapping with PIMMS – Pragmatic Insertional Mutation Mapping System
Cited by: 3
Author(s): Adam Blanchard, James A. Leigh, Sharon A. Egan, Richard D. Emes
Software Mentions: 3
Published: over 9 years ago

10.1371/journal.pgen.1006783

Global analysis of double-strand break processing reveals in vivo properties of the helicase-nuclease complex AddAB
Cited by: 14
Author(s): Anjana Badrinarayanan, Tung B. K. Le, Jan-Hendrik Spille, Ibrahima Cissé, Michael T. Laub
Software Mentions: 2
Published: over 7 years ago

10.1038/celldisc.2017.5

Translation in astrocyte distal processes sets molecular heterogeneity at the gliovascular interface
Cited by: 120
Author(s): Anne Boulay, Bruno Saubaméa, Nicolas Adam, Stéphanie Chasseigneaux, Noémie Mazaré, Alice Gilbert, Mathieu Bahin, Leïla Bastianelli, Corinne Blugeon, Sandrine Perrin, Juliette Pouch, Bertrand Ducos, Stéphane Le Crom, Auguste Genovesio, Fabrice Chrétien, Xavier Declèves, Jean‐Louis Laplanche, Martine Cohen-Salmon
Software Mentions: 2
Published: over 7 years ago

10.1016/j.celrep.2017.08.026

SMC Progressively Aligns Chromosomal Arms in Caulobacter crescentus but Is Antagonized by Convergent Transcription
Cited by: 112
Author(s): Ngat T. Tran, Michael T. Laub, Tung B. K. Le
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pcbi.1000574

Dynamic Allostery in the Methionine Repressor Revealed by Force Distribution Analysis
Cited by: 47
Author(s): Wolfram Stacklies, Fei Xia, Frauke Gräter
Software Mentions: 2
Published: almost 15 years ago

10.1002/ece3.3203

Habitat predictors of genetic diversity for two sympatric wetland-breeding amphibian species
Cited by: 6
Author(s): Anna M. McKee, John C. Maerz, Lora L. Smith, Travis C. Glenn
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms22041703

Transcriptome-Wide Analysis of Stationary Phase Small ncRNAs in E. coli
Cited by: 13
Author(s): Nicole Raad, Hannes Luidalepp, Michel Fasnacht, Norbert Polacek
Software Mentions: 2
Published: over 3 years ago

10.1186/s13742-016-0111-z

Species-level resolution of 16S rRNA gene amplicons sequenced through the MinION™ portable nanopore sequencer
Cited by: 172
Author(s): Alfonso Benı́tez-Páez, Kevin J. Portune, Yolanda Sanz
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-021-91724-z

Transfer RNA-derived fragments in aging Caenorhabditis elegans originate from abundant homologous gene copies
Cited by: 9
Author(s): Giwon Shin, Hee Jung Koo, Mihwa Seo, Seung-Jae Lee, Hong Gil Nam, Gyoo Yeol Jung
Software Mentions: 2
Published: over 3 years ago

10.1111/geb.12096

Global patterns of freshwater species diversity, threat and endemism
Cited by: 474
Author(s): Ben Collen, Felix J. S. Whitton, Ellie E. Dyer, Jonathan Baillie, Neil Cumberlidge, William Darwall, Caroline M. Pollock, Nadia I. Richman, Anne Marie Soulsby, Monika Böhm
Software Mentions: 1
Published: over 11 years ago

10.3390/biom7010013

Next‐Generation Sequencing‐Based RiboMethSeq Protocol for Analysis of tRNA 2′‐O‐Methylation
Cited by: 42
Author(s): Virginie Marchand, Florian Pichot, Kathrin Thüring, Lilia Ayadi, Isabel Freund, Alexander H. Dalpke, Mark Helm, Yuri Motorin
Software Mentions: 1
Published: over 7 years ago

10.1186/s12862-017-1019-7

Evaluating allopolyploid origins in strawberries (Fragaria) using haplotypes generated from target capture sequencing
Cited by: 64
Author(s): Olga K. Kamneva, John Syring, Aaron Liston, Noah A. Rosenberg
Software Mentions: 1
Published: over 7 years ago

10.1002/ece3.1682

Spatial and ecological population genetic structures within two island‐endemicAeoniumspecies of different niche width
Cited by: 5
Author(s): David E. V. Harter, Mike Thiv, Alfons Weig, Anke Jentsch, Carl Beierkuhnlein
Software Mentions: 1
Published: about 9 years ago

10.1128/mSphere.00392-17

Repression of YdaS Toxin Is Mediated by Transcriptional Repressor RacR in the Cryptic rac Prophage of Escherichia coli K-12
Cited by: 10
Author(s): Revathy Krishnamurthi, Swagatha Ghosh, Supriya Khedkar, Aswin Sai Narain Seshasayee
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0037029

Paired Tumor and Normal Whole Genome Sequencing of Metastatic Olfactory Neuroblastoma
Cited by: 33
Author(s): Glen J. Weiss, Winnie S. Liang, Tyler Izatt, Shilpi Arora, Irene Cherni, Robert N. Raju, Galen Hostetter, Ahmet Kurdoglu, Alexis Christoforides, Shripad Sinari, Angela Baker, Raghu Metpally, Waibhav Tembe, L Taylor Phillips, Daniel D. Von Hoff, David W. Craig, John D. Carpten
Software Mentions: 1
Published: over 12 years ago

Ecosyste.ms: Papers

Projects: pypi: sam

Papers Mentioning sam 28