Genomics

  1. Breaking Through Biology's Data Wall: Expanding the Known Tree of Life by Over 10x using a Global Biodiscovery Pipeline

    1. Oliver Vince
    2. Phoebe Oldach
    3. Valerio Pereno
    4. Marcus H Y Leung
    5. Carla Greco
    6. Gus Minto-Cowcher
    7. Saif Ur-Rehman
    8. Keith Y K Kam
    9. William Chow
    10. Emma Bolton
    11. Bupe R Mwambingu
    12. Nadine L Greenhalgh
    13. Ineke E Knot
    14. Leif Christoffersen
    15. Marlon Clark
    16. Robert Pecoraro
    17. Aaron W Kollasch
    18. Tanggis Bohnuud
    19. Matthew Bakalar
    20. Philipp Lorenz
    21. Glen Gowers

    Reviewed by Arcadia Science

    5 evaluationsAppears in 1 listLatest version Latest activity

  2. Mechanistic dissection of GRHL2 and PR transcriptional co-regulation in breast cells

    1. M.T. Aarts
    2. A. Nordin
    3. C. Cantù
    4. A.L. van Boxtel
    5. R. van Amerongen

    Reviewed by Review Commons

    4 evaluationsAppears in 1 listLatest version Latest activity

  3. A high-coverage genome from a 200,000-year-old Denisovan

    1. Stéphane Peyrégne
    2. Diyendo Massilani
    3. Yaniv Swiel
    4. Michael James Boyle
    5. Leonardo N. M. Iasi
    6. Arev P. Sümer
    7. Alba Bossoms Mesa
    8. Cesare de Filippo
    9. Bence Viola
    10. Elena Essel
    11. Sarah Nagel
    12. Julia Richter
    13. Antje Weihmann
    14. Barbara Schellbach
    15. Hugo Zeberg
    16. Johann Visagie
    17. Maxim B. Kozlikin
    18. Michael V. Shunkov
    19. Anatoly P. Derevianko
    20. Kay Prüfer
    21. Benjamin M. Peter
    22. Matthias Meyer
    23. Svante Pääbo
    24. Janet Kelso

    Reviewed by preLights

    1 evaluationAppears in 1 listLatest version Latest activity

  4. Beyond the transcript: Chromatin implications in trans-splicing in Trypanosomatids

    1. Romina Trinidad Zambrano Siri
    2. Paula Beati
    3. Lucas Inchausti
    4. Pablo Smircich
    5. Guillermo Daniel Alonso
    6. Josefina Ocampo

    Reviewed by Review Commons

    8 evaluationsAppears in 1 listLatest version Latest activity

  5. RNA-SeqEZPZ: a point-and-click pipeline for comprehensive transcriptomics analysis with interactive visualizations

    1. Cenny Taslim
    2. Yuan Zhang
    3. Galen Rask
    4. Genevieve C Kendall
    5. Emily R Theisen

    Reviewed by GigaScience

    2 evaluationsAppears in 1 listLatest version Latest activity

  6. Neisseria gonorrhoeae LIN codes provide a robust, multi-resolution lineage nomenclature

    1. Anastasia Unitt
    2. Made A Krisna
    3. Kasia M Parfitt
    4. Keith A Jolley
    5. Martin CJ Maiden
    6. Odile B Harrison

    • Curated by eLife

      eLife Assessment

      This important study introduces the Life Identification Number (LIN) coding system as a powerful and versatile approach for classifying Neisseria gonorrhoeae lineages. The authors show that LIN codes capture both previously defined lineages and their relationships in a way that aligns with the species' phylogenetic structure. The compelling evidence presented, together with its integration into the PubMLST platform, underscores its strong potential to enhance epidemiological surveillance and advance our understanding of gonococcal population biology.

    Reviewed by eLife

    8 evaluationsAppears in 1 listLatest version Latest activity

  7. Nonlinear transcriptional responses to gradual modulation of transcription factor dosage

    1. Júlia Domingo
    2. Mariia Minaeva
    3. John A Morris
    4. Samuel Ghatan
    5. Marcello Ziosi
    6. Neville E Sanjana
    7. Tuuli Lappalainen

    • Curated by eLife

      eLife Assessment

      This important work develops a new protocol to experimentally perturb target genes across a quantitative range of expression levels in cell lines. The evidence supporting their new perturbation approach is convincing, and we propose that focusing on single modality (activation or inhibition) would be sufficient to draw their conclusions. The study will be of broad interest to scientists in the fields of functional genomics and biotechnology.

    Reviewed by eLife

    7 evaluationsAppears in 1 listLatest version Latest activity

  8. Conservation of chromatin states and their association with transcription factors in land plants

    1. Vikas Shukla
    2. Elin Axelsson
    3. Tetsuya Hisanaga
    4. Jim Haseloff
    5. Frédéric Berger
    6. Facundo Romani

    Reviewed by Review Commons

    3 evaluationsAppears in 1 listLatest version Latest activity

  9. TinkerHap - A Novel Read-Based Phasing Algorithm with Integrated Multi-Method Support for Enhanced Accuracy

    1. Uri Hartmann
    2. Eran Shaham
    3. Dafna Nathan
    4. Ilana Blech
    5. Danny Zeevi

    Reviewed by GigaScience

    3 evaluationsAppears in 1 listLatest version Latest activity

  10. Chromatin accessibility variation provides insights into missing regulation underlying immune-mediated diseases

    1. Raehoon Jeong
    2. Martha L Bulyk

    • Curated by eLife

      eLife Assessment

      This paper addresses a significant question regarding the low overlap between genetic discoveries for human complex diseases and those for gene expression by emphasizing the contribution of cell-type-specific chromatin accessibility QTLs. The analyses supporting the main claims are convincing, and the key conclusions are valuable and of interest to readers in the fields of human genetics and functional genomics.

    Reviewed by eLife

    7 evaluationsAppears in 1 listLatest version Latest activity
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