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Items: 1 to 20 of 74

1.

Identification of somatic mutations in single cell DNA-seq using a spatial model of allelic imbalance.

Luquette LJ, Bohrson CL, Sherman MA, Park PJ.

Nat Commun. 2019 Aug 29;10(1):3908. doi: 10.1038/s41467-019-11857-8.

2.

Gene Fusions Derived by Transcriptional Readthrough are Driven by Segmental Duplication in Human.

McCartney AM, Hyland EM, Cormican P, Moran RJ, Webb AE, Lee KD, Hernandez-Rodriguez J, Prado-Martinez J, Creevey CJ, Aspden JL, McInerney JO, Marques-Bonet T, O'Connell MJ.

Genome Biol Evol. 2019 Sep 1;11(9):2678-2690. doi: 10.1093/gbe/evz163.

3.

Samovar: Single-Sample Mosaic Single-Nucleotide Variant Calling with Linked Reads.

Darby CA, Fitch JR, Brennan PJ, Kelly BJ, Bir N, Magrini V, Leonard J, Cottrell CE, Gastier-Foster JM, Wilson RK, Mardis ER, White P, Langmead B, Schatz MC.

iScience. 2019 Aug 30;18:1-10. doi: 10.1016/j.isci.2019.05.037. Epub 2019 May 29.

4.

Robust elimination of genome-damaged cells safeguards against brain somatic aneuploidy following Knl1 deletion.

Shi L, Qalieh A, Lam MM, Keil JM, Kwan KY.

Nat Commun. 2019 Jun 13;10(1):2588. doi: 10.1038/s41467-019-10411-w.

5.

Tracking Five Millennia of Horse Management with Extensive Ancient Genome Time Series.

Fages A, Hanghøj K, Khan N, Gaunitz C, Seguin-Orlando A, Leonardi M, McCrory Constantz C, Gamba C, Al-Rasheid KAS, Albizuri S, Alfarhan AH, Allentoft M, Alquraishi S, Anthony D, Baimukhanov N, Barrett JH, Bayarsaikhan J, Benecke N, Bernáldez-Sánchez E, Berrocal-Rangel L, Biglari F, Boessenkool S, Boldgiv B, Brem G, Brown D, Burger J, Crubézy E, Daugnora L, Davoudi H, de Barros Damgaard P, de Los Ángeles de Chorro Y de Villa-Ceballos M, Deschler-Erb S, Detry C, Dill N, do Mar Oom M, Dohr A, Ellingvåg S, Erdenebaatar D, Fathi H, Felkel S, Fernández-Rodríguez C, García-Viñas E, Germonpré M, Granado JD, Hallsson JH, Hemmer H, Hofreiter M, Kasparov A, Khasanov M, Khazaeli R, Kosintsev P, Kristiansen K, Kubatbek T, Kuderna L, Kuznetsov P, Laleh H, Leonard JA, Lhuillier J, Liesau von Lettow-Vorbeck C, Logvin A, Lõugas L, Ludwig A, Luis C, Arruda AM, Marques-Bonet T, Matoso Silva R, Merz V, Mijiddorj E, Miller BK, Monchalov O, Mohaseb FA, Morales A, Nieto-Espinet A, Nistelberger H, Onar V, Pálsdóttir AH, Pitulko V, Pitskhelauri K, Pruvost M, Rajic Sikanjic P, Rapan Papeša A, Roslyakova N, Sardari A, Sauer E, Schafberg R, Scheu A, Schibler J, Schlumbaum A, Serrand N, Serres-Armero A, Shapiro B, Sheikhi Seno S, Shevnina I, Shidrang S, Southon J, Star B, Sykes N, Taheri K, Taylor W, Teegen WR, Trbojević Vukičević T, Trixl S, Tumen D, Undrakhbold S, Usmanova E, Vahdati A, Valenzuela-Lamas S, Viegas C, Wallner B, Weinstock J, Zaibert V, Clavel B, Lepetz S, Mashkour M, Helgason A, Stefánsson K, Barrey E, Willerslev E, Outram AK, Librado P, Orlando L.

Cell. 2019 May 30;177(6):1419-1435.e31. doi: 10.1016/j.cell.2019.03.049. Epub 2019 May 2.

6.

Whole-genome sequence analysis of a Pan African set of samples reveals archaic gene flow from an extinct basal population of modern humans into sub-Saharan populations.

Lorente-Galdos B, Lao O, Serra-Vidal G, Santpere G, Kuderna LFK, Arauna LR, Fadhlaoui-Zid K, Pimenoff VN, Soodyall H, Zalloua P, Marques-Bonet T, Comas D.

Genome Biol. 2019 Apr 26;20(1):77. doi: 10.1186/s13059-019-1684-5.

7.

Genome-wide de novo L1 Retrotransposition Connects Endonuclease Activity with Replication.

Flasch DA, Macia Á, Sánchez L, Ljungman M, Heras SR, García-Pérez JL, Wilson TE, Moran JV.

Cell. 2019 May 2;177(4):837-851.e28. doi: 10.1016/j.cell.2019.02.050. Epub 2019 Apr 4.

PMID:
30955886
8.

Linked-read analysis identifies mutations in single-cell DNA-sequencing data.

Bohrson CL, Barton AR, Lodato MA, Rodin RE, Luquette LJ, Viswanadham VV, Gulhan DC, Cortés-Ciriano I, Sherman MA, Kwon M, Coulter ME, Galor A, Walsh CA, Park PJ.

Nat Genet. 2019 Apr;51(4):749-754. doi: 10.1038/s41588-019-0366-2. Epub 2019 Mar 18.

9.

The comparative genomics and complex population history of Papio baboons.

Rogers J, Raveendran M, Harris RA, Mailund T, Leppälä K, Athanasiadis G, Schierup MH, Cheng J, Munch K, Walker JA, Konkel MK, Jordan V, Steely CJ, Beckstrom TO, Bergey C, Burrell A, Schrempf D, Noll A, Kothe M, Kopp GH, Liu Y, Murali S, Billis K, Martin FJ, Muffato M, Cox L, Else J, Disotell T, Muzny DM, Phillips-Conroy J, Aken B, Eichler EE, Marques-Bonet T, Kosiol C, Batzer MA, Hahn MW, Tung J, Zinner D, Roos C, Jolly CJ, Gibbs RA, Worley KC; Baboon Genome Analysis Consortium.

Sci Adv. 2019 Jan 30;5(1):eaau6947. doi: 10.1126/sciadv.aau6947. eCollection 2019 Jan.

10.

Genetic Variation in Pan Species Is Shaped by Demographic History and Harbors Lineage-Specific Functions.

Han S, Andrés AM, Marques-Bonet T, Kuhlwilm M.

Genome Biol Evol. 2019 Apr 1;11(4):1178-1191. doi: 10.1093/gbe/evz047.

11.

Long-read single-molecule maps of the functional methylome.

Sharim H, Grunwald A, Gabrieli T, Michaeli Y, Margalit S, Torchinsky D, Arielly R, Nifker G, Juhasz M, Gularek F, Almalvez M, Dufault B, Chandra SS, Liu A, Bhattacharya S, Chen YW, Vilain E, Wagner KR, Pevsner J, Reifenberger J, Lam ET, Hastie AR, Cao H, Barseghyan H, Weinhold E, Ebenstein Y.

Genome Res. 2019 Apr;29(4):646-656. doi: 10.1101/gr.240739.118. Epub 2019 Mar 7.

12.

Evidence for Innate and Adaptive Immune Responses in a Cohort of Intractable Pediatric Epilepsy Surgery Patients.

Owens GC, Garcia AJ, Mochizuki AY, Chang JW, Reyes SD, Salamon N, Prins RM, Mathern GW, Fallah A.

Front Immunol. 2019 Jan 29;10:121. doi: 10.3389/fimmu.2019.00121. eCollection 2019.

13.

Neurons with Complex Karyotypes Are Rare in Aged Human Neocortex.

Chronister WD, Burbulis IE, Wierman MB, Wolpert MJ, Haakenson MF, Smith ACB, Kleinman JE, Hyde TM, Weinberger DR, Bekiranov S, McConnell MJ.

Cell Rep. 2019 Jan 22;26(4):825-835.e7. doi: 10.1016/j.celrep.2018.12.107.

14.

The Genomic Footprints of the Fall and Recovery of the Crested Ibis.

Feng S, Fang Q, Barnett R, Li C, Han S, Kuhlwilm M, Zhou L, Pan H, Deng Y, Chen G, Gamauf A, Woog F, Prys-Jones R, Marques-Bonet T, Gilbert MTP, Zhang G.

Curr Biol. 2019 Jan 21;29(2):340-349.e7. doi: 10.1016/j.cub.2018.12.008. Epub 2019 Jan 10.

15.

Selective single molecule sequencing and assembly of a human Y chromosome of African origin.

Kuderna LFK, Lizano E, Julià E, Gomez-Garrido J, Serres-Armero A, Kuhlwilm M, Alandes RA, Alvarez-Estape M, Juan D, Simon H, Alioto T, Gut M, Gut I, Schierup MH, Fornas O, Marques-Bonet T.

Nat Commun. 2019 Jan 2;10(1):4. doi: 10.1038/s41467-018-07885-5.

16.

Historical Genomes Reveal the Genomic Consequences of Recent Population Decline in Eastern Gorillas.

van der Valk T, Díez-Del-Molino D, Marques-Bonet T, Guschanski K, Dalén L.

Curr Biol. 2019 Jan 7;29(1):165-170.e6. doi: 10.1016/j.cub.2018.11.055. Epub 2018 Dec 27.

PMID:
30595519
17.

Spatiotemporal transcriptomic divergence across human and macaque brain development.

Zhu Y, Sousa AMM, Gao T, Skarica M, Li M, Santpere G, Esteller-Cucala P, Juan D, Ferrández-Peral L, Gulden FO, Yang M, Miller DJ, Marques-Bonet T, Imamura Kawasawa Y, Zhao H, Sestan N.

Science. 2018 Dec 14;362(6420). pii: eaat8077. doi: 10.1126/science.aat8077. Epub 2018 Dec 13.

18.

Giant tortoise genomes provide insights into longevity and age-related disease.

Quesada V, Freitas-Rodríguez S, Miller J, Pérez-Silva JG, Jiang ZF, Tapia W, Santiago-Fernández O, Campos-Iglesias D, Kuderna LFK, Quinzin M, Álvarez MG, Carrero D, Beheregaray LB, Gibbs JP, Chiari Y, Glaberman S, Ciofi C, Araujo-Voces M, Mayoral P, Arango JR, Tamargo-Gómez I, Roiz-Valle D, Pascual-Torner M, Evans BR, Edwards DL, Garrick RC, Russello MA, Poulakakis N, Gaughran SJ, Rueda DO, Bretones G, Marquès-Bonet T, White KP, Caccone A, López-Otín C.

Nat Ecol Evol. 2019 Jan;3(1):87-95. doi: 10.1038/s41559-018-0733-x. Epub 2018 Dec 3.

19.

Large-scale associations between the leukocyte transcriptome and BOLD responses to speech differ in autism early language outcome subtypes.

Lombardo MV, Pramparo T, Gazestani V, Warrier V, Bethlehem RAI, Carter Barnes C, Lopez L, Lewis NE, Eyler L, Pierce K, Courchesne E.

Nat Neurosci. 2018 Dec;21(12):1680-1688. doi: 10.1038/s41593-018-0281-3. Epub 2018 Nov 26.

20.

The effect of rho kinase inhibition on morphological and electrophysiological maturity in iPSC-derived neurons.

Harbom LJ, Rudisill TL, Michel N, Litwa KA, Beenhakker MP, McConnell MJ.

Cell Tissue Res. 2019 Mar;375(3):641-654. doi: 10.1007/s00441-018-2942-7. Epub 2018 Nov 8.

PMID:
30406823

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