Amedeo Smart

Free Medical Literature Service


 

Amedeo

Genetics

  Free Subscription

Articles published in
Genome Res
    March 2024
  1. YU W, Luo H, Yang J, Zhang S, et al
    Comprehensive assessment of 11 de novo HiFi assemblers on complex eukaryotic genomes and metagenomes.
    Genome Res. 2024;34:326-340.
    >> Share

  2. CHE H, Jiang P, Choy LYL, Cheng SH, et al
    Genomic origin, fragmentomics, and transcriptional properties of long cell-free DNA molecules in human plasma.
    Genome Res. 2024;34:189-200.
    >> Share

    February 2024
  3. LEBARON VON BAEYER S, Crocker R, Rakotoarivony R, Ranaivoarisoa JF, et al
    Why community consultation matters in genomic research benefit-sharing models.
    Genome Res. 2024;34:1-6.
    >> Share

    December 2023
  4. HARVEY WT, Ebert P, Ebler J, Audano PA, et al
    Whole-genome long-read sequencing downsampling and its effect on variant-calling precision and recall.
    Genome Res. 2023;33:2029-2040.
    >> Share

    October 2023
  5. CHRISMAN B, He C, Jung JY, Stockham N, et al
    Localizing unmapped sequences with families to validate the Telomere-to-Telomere assembly and identify new hotspots for genetic diversity.
    Genome Res. 2023;33:1734-1746.
    >> Share

  6. BARIL T, Pym A, Bass C, Hayward A, et al
    Transposon accumulation at xenobiotic gene family loci in aphids.
    Genome Res. 2023;33:1718-1733.
    >> Share

  7. SPROUL JS, Hotaling S, Heckenhauer J, Powell A, et al
    Analyses of 600+ insect genomes reveal repetitive element dynamics and highlight biodiversity-scale repeat annotation challenges.
    Genome Res. 2023;33:1708-1717.
    >> Share

    September 2023
  8. LI Z, Meisner J, Albrechtsen A
    Fast and accurate out-of-core PCA framework for large scale biobank data.
    Genome Res. 2023;33:1599-1608.
    >> Share

  9. PAREY E, Fernandez-Aroca D, Frost S, Uribarren A, et al
    Phylogenetic modeling of enhancer shifts in African mole-rats reveals regulatory changes associated with tissue-specific traits.
    Genome Res. 2023;33:1513-1526.
    >> Share

    August 2023
  10. DE TRIBOLET-HARDY J, Thorball CW, Forey R, Planet E, et al
    Genetic features and genomic targets of human KRAB-zinc finger proteins.
    Genome Res. 2023;33:1409-1423.
    >> Share

  11. DAI X, Bian P, Hu D, Luo F, et al
    A Chinese indicine pangenome reveals a wealth of novel structural variants introgressed from other Bos species.
    Genome Res. 2023;33:1284-1298.
    >> Share

  12. MARMOL-SANCHEZ E, Fromm B, Oskolkov N, Pochon Z, et al
    Historical RNA expression profiles from the extinct Tasmanian tiger.
    Genome Res. 2023;33:1299-1316.
    >> Share

    July 2023
  13. SCHWEIGER R, Durbin R
    Ultrafast genome-wide inference of pairwise coalescence times.
    Genome Res. 2023;33:1023-1031.
    >> Share

  14. BAKER DN, Langmead B
    Genomic sketching with multiplicities and locality-sensitive hashing using Dashing 2.
    Genome Res. 2023;33:1218-1227.
    >> Share

  15. RAHMAN HERA M, Pierce-Ward NT, Koslicki D
    Deriving confidence intervals for mutation rates across a wide range of evolutionary distances using FracMinHash.
    Genome Res. 2023;33:1061-1068.
    >> Share

  16. CRACCO A, Tomescu AI
    Extremely fast construction and querying of compacted and colored de Bruijn graphs with GGCAT.
    Genome Res. 2023;33:1198-1207.
    >> Share

  17. VENKATESARAMANI R, Wan Z, Malin BA, Vorobeychik Y, et al
    Enabling tradeoffs in privacy and utility in genomic data Beacons and summary statistics.
    Genome Res. 2023;33:1113-1123.
    >> Share

    June 2023
  18. GRANDCHAMP A, Kuhl L, Lebherz M, Bruggemann K, et al
    Population genomics reveals mechanisms and dynamics of de novo expressed open reading frame emergence in Drosophila melanogaster.
    Genome Res. 2023;33:872-890.
    >> Share

  19. JOURDAIN J, Barasc H, Faraut T, Calgaro A, et al
    Large-scale detection and characterization of interchromosomal rearrangements in normozoospermic bulls using massive genotype and phenotype data sets.
    Genome Res. 2023;33:957-971.
    >> Share

  20. ATKINSON EG, Artomov M, Loboda AA, Rehm HL, et al
    Discordant calls across genotype discovery approaches elucidate variants with systematic errors.
    Genome Res. 2023;33:999-1005.
    >> Share

    May 2023
  21. PALAHI I TORRES A, Hook L, Nasvall K, Shipilina D, et al
    The fine-scale recombination rate variation and associations with genomic features in a butterfly.
    Genome Res. 2023;33:810-823.
    >> Share

  22. MORIN A, Chu EC, Sharma A, Adrian-Hamazaki A, et al
    Characterizing the targets of transcription regulators by aggregating ChIP-seq and perturbation expression data sets.
    Genome Res. 2023;33:763-778.
    >> Share

  23. JIAO Y, Li M, He X, Wang Y, et al
    Targeted, programmable, and precise tandem duplication in the mammalian genome.
    Genome Res. 2023;33:779-786.
    >> Share

  24. MUMM C, Drexel ML, McDonald TL, Diehl AG, et al
    Multiplexed long-read plasmid validation and analysis using OnRamp.
    Genome Res. 2023;33:741-749.
    >> Share

  25. ZHUO X, Hsu S, Purushotham D, Kuntala PK, et al
    Comparing genomic and epigenomic features across species using the WashU Comparative Epigenome Browser.
    Genome Res. 2023;33:824-835.
    >> Share

  26. BAFNA A, Banks G, Hastings MH, Nolan PM, et al
    Dynamic modulation of genomic enhancer elements in the suprachiasmatic nucleus, the site of the mammalian circadian clock.
    Genome Res. 2023;33:673-688.
    >> Share

  27. GERSHMAN A, Hauck Q, Dick M, Jamison JM, et al
    Genomic insights into metabolic flux in hummingbirds.
    Genome Res. 2023;33:703-714.
    >> Share

    April 2023
  28. BARROSO GV, Lohmueller KE
    Inferring the mode and strength of ongoing selection.
    Genome Res. 2023;33:632-643.
    >> Share

  29. SUN Y, Cheng Z, Li X, Yang Q, et al
    Genome enrichment of rare and unknown species from complicated microbiomes by nanopore selective sequencing.
    Genome Res. 2023;33:612-621.
    >> Share

    March 2023
  30. ZHU FY, Chen X, Song YC, Lam LPY, et al
    SWATH-MS-based proteogenomic analysis reveals the involvement of alternative splicing in poplar upon lead stress.
    Genome Res. 2023;33:371-385.
    >> Share

  31. LIU J, Dawe RK
    Large haplotypes highlight a complex age structure within the maize pan-genome.
    Genome Res. 2023;33:359-370.
    >> Share

  32. DEBO BM, Mallory BJ, Stergachis AB
    Evaluation of N (6)-methyldeoxyadenosine antibody-based genomic profiling in eukaryotes.
    Genome Res. 2023;33:427-434.
    >> Share

    February 2023
  33. TIAN T, Zhong C, Lin X, Wei Z, et al
    Complex hierarchical structures in single-cell genomics data unveiled by deep hyperbolic manifold learning.
    Genome Res. 2023;33:232-246.
    >> Share

  34. O'CONNELL BL, Nichols RV, Pokholok D, Thomas J, et al
    Atlas-scale single-cell chromatin accessibility using nanowell-based combinatorial indexing.
    Genome Res. 2023;33:208-217.
    >> Share

    January 2023
  35. HARI A, Zhou Q, Gonzaludo N, Harting J, et al
    An efficient genotyper and star-allele caller for pharmacogenomics.
    Genome Res. 2023;33:61-70.
    >> Share

  36. MAROILLEY T, Flibotte S, Jean F, Rodrigues Alves Barbosa V, et al
    Genome sequencing of C. elegans balancer strains reveals previously unappreciated complex genomic rearrangements.
    Genome Res. 2023;33:154-167.
    >> Share

  37. MULHAIR PO, Crowley L, Boyes DH, Harper A, et al
    Diversity, duplication, and genomic organization of homeobox genes in Lepidoptera.
    Genome Res. 2023;33:32-44.
    >> Share

    November 2022
  38. FEDARKO MW, Kolmogorov M, Pevzner PA
    Analyzing rare mutations in metagenomes assembled using long and accurate reads.
    Genome Res. 2022;32.
    >> Share

    October 2022
  39. GENG K, Merino LG, Wedemann L, Martens A, et al
    Target-enriched nanopore sequencing and de novo assembly reveals co-occurrences of complex on-target genomic rearrangements induced by CRISPR-Cas9 in human cells.
    Genome Res. 2022;32:1876-1891.
    >> Share

  40. RUGGIERI AA, Livraghi L, Lewis JJ, Evans E, et al
    A butterfly pan-genome reveals that a large amount of structural variation underlies the evolution of chromatin accessibility.
    Genome Res. 2022;32:1862-1875.
    >> Share

  41. YU H, Ness S, Li CI, Bai Y, et al
    Surveying mutation density patterns around specific genomic features.
    Genome Res. 2022;32:1930-1940.
    >> Share

    July 2022
  42. XU B, Gao X, Li X, Jia Y, et al
    Cell cycle arrest explains the observed bulk 3D genomic alterations in response to long-term heat shock in K562 cells.
    Genome Res. 2022;32:1285-1297.
    >> Share

  43. SIAHPIRANI AF, Knaack S, Chasman D, Seirup M, et al
    Dynamic regulatory module networks for inference of cell type-specific transcriptional networks.
    Genome Res. 2022;32:1367-1384.
    >> Share

  44. LEE HJ, Hou Y, Maeng JH, Shah NM, et al
    Epigenomic analysis reveals prevalent contribution of transposable elements to cis-regulatory elements, tissue-specific expression, and alternative promoters in zebrafish.
    Genome Res. 2022;32:1424-1436.
    >> Share

  45. CHANG NC, Rovira Q, Wells J, Feschotte C, et al
    Zebrafish transposable elements show extensive diversification in age, genomic distribution, and developmental expression.
    Genome Res. 2022;32:1408-1423.
    >> Share

  46. MIKULASOVA A, Kent D, Trevisan-Herraz M, Karataraki N, et al
    Epigenomic translocation of H3K4me3 broad domains over oncogenes following hijacking of super-enhancers.
    Genome Res. 2022;32:1343-1354.
    >> Share

    June 2022
  47. CHEN DW, Garud NR
    Rapid evolution and strain turnover in the infant gut microbiome.
    Genome Res. 2022;32:1124-1136.
    >> Share

    May 2022
  48. SHALON N, Relman DA, Yaffe E
    Precise genotyping of circular mobile elements from metagenomic data uncovers human-associated plasmids with recent common ancestors.
    Genome Res. 2022;32:986-1003.
    >> Share

  49. ZHANG F, Xue H, Dong X, Li M, et al
    Long-read sequencing of 111 rice genomes reveals significantly larger pan-genomes.
    Genome Res. 2022;32:853-863.
    >> Share

    April 2022
  50. ANTONARAKIS SE
    Short arms of human acrocentric chromosomes and the completion of the human genome sequence.
    Genome Res. 2022;32:599-607.
    >> Share

  51. TALBERT PB, Henikoff S
    The genetics and epigenetics of satellite centromeres.
    Genome Res. 2022;32:608-615.
    >> Share


  52. Implications of the first complete human genome assembly.
    Genome Res. 2022;32:595-598.
    >> Share

  53. KAMINOW B, Ballouz S, Gillis J, Dobin A, et al
    Pan-human consensus genome significantly improves the accuracy of RNA-seq analyses.
    Genome Res. 2022;32:738-749.
    >> Share

    March 2022
  54. VILUMA A, Flagstad O, Akesson M, Wikenros C, et al
    Whole-genome resequencing of temporally stratified samples reveals substantial loss of haplotype diversity in the highly inbred Scandinavian wolf population.
    Genome Res. 2022;32:449-458.
    >> Share

  55. RIBEIRO-DOS-SANTOS AM, Hogan MS, Luther RD, Brosh R, et al
    Genomic context sensitivity of insulator function.
    Genome Res. 2022;32:425-436.
    >> Share

  56. JOSEPH TA, Chlenski P, Litman A, Korem T, et al
    Accurate and robust inference of microbial growth dynamics from metagenomic sequencing reveals personalized growth rates.
    Genome Res. 2022;32:558-568.
    >> Share

    January 2022
  57. GALL-DUNCAN T, Sato N, Yuen RKC, Pearson CE, et al
    Advancing genomic technologies and clinical awareness accelerates discovery of disease-associated tandem repeat sequences.
    Genome Res. 2022;32:1-27.
    >> Share

  58. LIU L, Chen H, Sun C, Zhang J, et al
    Low-frequency somatic copy number alterations in normal human lymphocytes revealed by large-scale single-cell whole-genome profiling.
    Genome Res. 2022;32:44-54.
    >> Share

  59. CHEN S, Liu Y, Zhang Y, Wierbowski SD, et al
    A full-proteome, interaction-specific characterization of mutational hotspots across human cancers.
    Genome Res. 2022;32:135-149.
    >> Share

  60. HONG CKY, Cohen BA
    Genomic environments scale the activities of diverse core promoters.
    Genome Res. 2022;32:85-96.
    >> Share

    November 2021
  61. CAHILL JA, Armstrong J, Deran A, Khoury CJ, et al
    Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans.
    Genome Res. 2021;31:2035-2049.
    >> Share

  62. LIU X, Ogilvie HA, Nakhleh L
    Variational inference using approximate likelihood under the coalescent with recombination.
    Genome Res. 2021;31:2107-2119.
    >> Share

  63. STANEVA DP, Carloni R, Auchynnikava T, Tong P, et al
    A systematic analysis of Trypanosoma brucei chromatin factors identifies novel protein interaction networks associated with sites of transcription initiation and termination.
    Genome Res. 2021;31:2138-2154.
    >> Share

    October 2021
  64. AUERBACH BJ, Hu J, Reilly MP, Li M, et al
    Applications of single-cell genomics and computational strategies to study common disease and population-level variation.
    Genome Res. 2021;31:1728-1741.
    >> Share

  65. ADEY AC
    Tagmentation-based single-cell genomics.
    Genome Res. 2021;31:1693-1705.
    >> Share

  66. OHNUKI H, Venzon DJ, Lobanov A, Tosato G, et al
    Iterative epigenomic analyses in the same single cell.
    Genome Res. 2021;31:1819-1830.
    >> Share

    September 2021
  67. SAUTERAUD R, Stahl JM, James J, Englebright M, et al
    Inferring genes that escape X-Chromosome inactivation reveals important contribution of variable escape genes to sex-biased diseases.
    Genome Res. 2021;31:1629-1637.
    >> Share

    August 2021
  68. ROODGAR M, Good BH, Garud NR, Martis S, et al
    Longitudinal linked-read sequencing reveals ecological and evolutionary responses of a human gut microbiome during antibiotic treatment.
    Genome Res. 2021;31:1433-1446.
    >> Share

  69. BRASHEAR WA, Bredemeyer KR, Murphy WJ
    Genomic architecture constrained placental mammal X Chromosome evolution.
    Genome Res. 2021;31:1353-1365.
    >> Share

  70. HERPIN A, Schartl M, Depince A, Guiguen Y, et al
    Allelic diversification after transposable element exaptation promoted gsdf as the master sex determining gene of sablefish.
    Genome Res. 2021;31:1366-1380.
    >> Share

  71. RIDDIFORD N, Siudeja K, van den Beek M, Boumard B, et al
    Evolution and genomic signatures of spontaneous somatic mutation in Drosophila intestinal stem cells.
    Genome Res. 2021;31:1419-1432.
    >> Share

    June 2021
  72. SHIRAI K, Sato MP, Nishi R, Seki M, et al
    Positive selective sweeps of epigenetic mutations regulating specialized metabolites in plants.
    Genome Res. 2021;31:1060-1068.
    >> Share

  73. BOHM KA, Hodges AJ, Czaja W, Selvam K, et al
    Distinct roles for RSC and SWI/SNF chromatin remodelers in genomic excision repair.
    Genome Res. 2021;31:1047-1059.
    >> Share

  74. RADKE DW, Sul JH, Balick DJ, Akle S, et al
    Purifying selection on noncoding deletions of human regulatory loci detected using their cellular pleiotropy.
    Genome Res. 2021;31:935-946.
    >> Share

    May 2021
  75. CHEN M, Wei R, Wei G, Xu M, et al
    Systematic evaluation of the effect of polyadenylation signal variants on the expression of disease-associated genes.
    Genome Res. 2021;31:890-899.
    >> Share

  76. SERRES-ARMERO A, Davis BW, Povolotskaya IS, Morcillo-Suarez C, et al
    Copy number variation underlies complex phenotypes in domestic dog breeds and other canids.
    Genome Res. 2021;31:762-774.
    >> Share

  77. RANALLO-BENAVIDEZ TR, Lemmon Z, Soyk S, Aganezov S, et al
    Optimized sample selection for cost-efficient long-read population sequencing.
    Genome Res. 2021;31:910-918.
    >> Share

    April 2021
  78. LI Y, Cao K, Li N, Zhu G, et al
    Genomic analyses provide insights into peach local adaptation and responses to climate change.
    Genome Res. 2021;31:592-606.
    >> Share

    March 2021
  79. MA Q, Srivastav SP, Gamez S, Dayama G, et al
    A mosquito small RNA genomics resource reveals dynamic evolution and host responses to viruses and transposons.
    Genome Res. 2021;31:512-528.
    >> Share

  80. LIAO Y, Zhang X, Chakraborty M, Emerson JJ, et al
    Topologically associating domains and their role in the evolution of genome structure and function in Drosophila.
    Genome Res. 2021;31:397-410.
    >> Share

    January 2021
  81. BAKER JL, Morton JT, Dinis M, Alvarez R, et al
    Deep metagenomics examines the oral microbiome during dental caries, revealing novel taxa and co-occurrences with host molecules.
    Genome Res. 2021;31:64-74.
    >> Share

  82. UZUN Y, Wu H, Tan K
    Predictive modeling of single-cell DNA methylome data enhances integration with transcriptome data.
    Genome Res. 2021;31:101-109.
    >> Share

    October 2020
  83. GOMEZ-CARBALLA A, Bello X, Pardo-Seco J, Martinon-Torres F, et al
    Mapping genome variation of SARS-CoV-2 worldwide highlights the impact of COVID-19 super-spreaders.
    Genome Res. 2020;30:1434-1448.
    >> Share

    March 2020
  84. CHEN LX, Anantharaman K, Shaiber A, Eren AM, et al
    Accurate and complete genomes from metagenomes.
    Genome Res. 2020;30:315-333.
    >> Share

  85. FREEMAN TM, Wang D, Harris J
    Genomic loci susceptible to systematic sequencing bias in clinical whole genomes.
    Genome Res. 2020;30:415-426.
    >> Share

  86. BEAULAURIER J, Luo E, Eppley JM, Uyl PD, et al
    Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities.
    Genome Res. 2020;30:437-446.
    >> Share

    February 2020
  87. MILLS RH, Wozniak JM, Vrbanac A, Campeau A, et al
    Organ-level protein networks as a reference for the host effects of the microbiome.
    Genome Res. 2020;30:276-286.
    >> Share

  88. ZHANG F, Flickinger M, Taliun SAG, Abecasis GR, et al
    Ancestry-agnostic estimation of DNA sample contamination from sequence reads.
    Genome Res. 2020;30:185-194.
    >> Share

  89. BLAKE LE, Roux J, Hernando-Herraez I, Banovich NE, et al
    A comparison of gene expression and DNA methylation patterns across tissues and species.
    Genome Res. 2020;30:250-262.
    >> Share

    January 2020
  90. THORNLOW BP, Armstrong J, Holmes AD, Howard JM, et al
    Predicting transfer RNA gene activity from sequence and genome context.
    Genome Res. 2020;30:85-94.
    >> Share

  91. ROTHSTEIN M, Simoes-Costa M
    Heterodimerization of TFAP2 pioneer factors drives epigenomic remodeling during neural crest specification.
    Genome Res. 2020;30:35-48.
    >> Share

  92. BARRIO-HERNANDEZ I, Jafari A, Rigbolt KTG, Hallenborg P, et al
    Phosphoproteomic profiling reveals a defined genetic program for osteoblastic lineage commitment of human bone marrow-derived stromal stem cells.
    Genome Res. 2020;30:127-137.
    >> Share

  93. ZHOU Z, Alikhan NF, Mohamed K, Fan Y, et al
    The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny, and Escherichia core genomic diversity.
    Genome Res. 2020;30:138-152.
    >> Share

  94. BELOKOPYTOVA PS, Nuriddinov MA, Mozheiko EA, Fishman D, et al
    Quantitative prediction of enhancer-promoter interactions.
    Genome Res. 2020;30:72-84.
    >> Share


Free Medical Abstracts
Privacy Policy
Sponsors
Share

© Amedeo 1997-2016