Literature DB >> 29788404

Snakemake-a scalable bioinformatics workflow engine.

Johannes Köster, Sven Rahmann.   

Abstract

Year:  2018        PMID： 29788404     DOI： 10.1093/bioinformatics/bty350

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


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  79 in total

1.  Identifying high-confidence capture Hi-C interactions using CHiCANE.

Authors:  Erle M Holgersen; Andrea Gillespie; Olivia C Leavy; Joseph S Baxter; Alisa Zvereva; Gareth Muirhead; Nichola Johnson; Orsolya Sipos; Nicola H Dryden; Laura R Broome; Yi Chen; Igor Kozin; Frank Dudbridge; Olivia Fletcher; Syed Haider
Journal:  Nat Protoc       Date:  2021-04-09       Impact factor: 13.491

2.  StainedGlass: Interactive visualization of massive tandem repeat structures with identity heatmaps.

Authors:  Mitchell R Vollger; Peter Kerpedjiev; Adam M Phillippy; Evan E Eichler
Journal:  Bioinformatics       Date:  2022-01-10       Impact factor: 6.937

3.  Influence of basal media composition on barrier fidelity within human pluripotent stem cell-derived blood-brain barrier models.

Authors:  Emma H Neal; Ketaki A Katdare; Yajuan Shi; Nicholas A Marinelli; Kameron A Hagerla; Ethan S Lippmann
Journal:  J Neurochem       Date:  2021-11-18       Impact factor: 5.372

4.  Comparative Molecular Life History of Spontaneous Canine and Human Gliomas.

Authors:  Samirkumar B Amin; Kevin J Anderson; C Elizabeth Boudreau; Emmanuel Martinez-Ledesma; Emre Kocakavuk; Kevin C Johnson; Floris P Barthel; Frederick S Varn; Cynthia Kassab; Xiaoyang Ling; Hoon Kim; Mary Barter; Ching C Lau; Chew Yee Ngan; Margaret Chapman; Jennifer W Koehler; James P Long; Andrew D Miller; C Ryan Miller; Brian F Porter; Daniel R Rissi; Christina Mazcko; Amy K LeBlanc; Peter J Dickinson; Rebecca A Packer; Amanda R Taylor; John H Rossmeisl; Kevin D Woolard; Amy B Heimberger; Jonathan M Levine; Roel G W Verhaak
Journal:  Cancer Cell       Date:  2020-02-10       Impact factor: 31.743

5.  Spritz: A Proteogenomic Database Engine.

Authors:  Anthony J Cesnik; Rachel M Miller; Khairina Ibrahim; Lei Lu; Robert J Millikin; Michael R Shortreed; Brian L Frey; Lloyd M Smith
Journal:  J Proteome Res       Date:  2020-10-07       Impact factor: 4.466

6.  Monitoring mammalian mitochondrial translation with MitoRiboSeq.

Authors:  Sophia Hsin-Jung Li; Michel Nofal; Lance R Parsons; Joshua D Rabinowitz; Zemer Gitai
Journal:  Nat Protoc       Date:  2021-05-05       Impact factor: 13.491

7.  Unique evolutionary trajectories of breast cancers with distinct genomic and spatial heterogeneity.

Authors:  Tanya N Phung; Timothy H Webster; Elizabeth Lenkiewicz; Smriti Malasi; Mariacarla Andreozzi; Ann E McCullough; Karen S Anderson; Barbara A Pockaj; Melissa A Wilson; Michael T Barrett
Journal:  Sci Rep       Date:  2021-05-19       Impact factor: 4.379

8.  Cantaloupe melon genome reveals 3D chromatin features and structural relationship with the ancestral cucurbitaceae karyotype.

Authors:  Clement Pichot; Anis Djari; Joseph Tran; Marion Verdenaud; William Marande; Cecile Huneau; Veronique Gautier; David Latrasse; Sandrine Arribat; Vivien Sommard; Christelle Troadec; Charles Poncet; Mohammed Bendahmane; Judit Szecsi; Catherine Dogimont; Jerome Salse; Moussa Benhamed; Mohamed Zouine; Adnane Boualem; Abdelhafid Bendahmane
Journal:  iScience       Date:  2021-12-25

Review 9.  Single Copy Oligonucleotide Fluorescence In Situ Hybridization Probe Design Platforms: Development, Application and Evaluation.

Authors:  Guanqing Liu; Tao Zhang
Journal:  Int J Mol Sci       Date:  2021-07-01       Impact factor: 5.923

10.  Microbiota and Metabolite Modifications after Dietary Exclusion of Dairy Products and Reduced Consumption of Fermented Food in Young and Older Men.

Authors:  Jinyoung Kim; Kathryn J Burton-Pimentel; Charlotte Fleuti; Carola Blaser; Valentin Scherz; René Badertscher; Corinne Marmonier; Noëlle Lyon-Belgy; Aurélie Caille; Véronique Pidou; Adeline Blot; Claire Bertelli; Jérémie David; Ueli Bütikofer; Gilbert Greub; Dominique Dardevet; Sergio Polakof; Guy Vergères
Journal:  Nutrients       Date:  2021-06-01       Impact factor: 5.717
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