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Search life-sciences literature (45,104,145 articles, preprints and more)

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Differential chromatin accessibility and transcriptional dynamics define breast cancer subtypes and their lineages.
Iglesia MD, Jayasinghe RG, Chen S, Terekhanova NV, Herndon JM, Storrs E, Karpova A, Zhou DC, Naser Al Deen N, Shinkle AT, Lu RJ, Caravan W, Houston A, Zhao Y, Sato K, Lal P, Street C, Martins Rodrigues F, Southard-Smith AN, [...] Ding L
Nat Cancer, 30 Oct 2024
Cited by: 0 articles | PMID: 39478117
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Monitoring clonal burden as an alternative to blast count for myelodysplastic neoplasm treatment response.
Jacoby MA, Duncavage ED, Khanna A, Chang GS, Nonavinkere Srivatsan S, Miller CA, Gao F, Robinson J, Shao J, Fulton RS, Fronick CC, O'Laughlin M, Heath SE, Brendel K, Chavez M, DiPersio JF, Abboud CN, Stockerl-Goldstein K, Westervelt P, [...] Walter MJ
Leukemia, 04 Oct 2024
Cited by: 0 articles | PMID: 39367170
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Somatic mutation phasing and haplotype extension using linked-reads in multiple myeloma
Foltz SM, Li Y, Yao L, Terekhanova NV, Weerasinghe A, Gao Q, Dong G, Schindler M, Cao S, Sun H, Jayasinghe RG, Fulton RS, Fronick CC, King J, Kohnen DR, Fiala MA, Chen K, DiPersio JF, Vij R, Ding L
bioRxiv, 10 Aug 2024
Cited by: 0 articles | PPR: PPR893447
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Neoantigen landscape supports feasibility of personalized cancer vaccine for follicular lymphoma.
Ramirez CA, Becker-Hapak M, Singhal K, Russler-Germain DA, Frenkel F, Barnell EK, McClain ED, Desai S, Schappe T, Onyeador OC, Kudryashova O, Belousov V, Bagaev A, Ocheredko E, Kiwala S, Hundal J, Skidmore ZL, Watkins MP, Mooney TB, [...] Fehniger TA
Blood Adv, 8(15):4035-4049, 01 Aug 2024
Cited by: 0 articles | PMID: 38713894 | PMCID: PMC11339042
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Human whole-exome genotype data for Alzheimer's disease.
Leung YY, Naj AC, Chou YF, Valladares O, Schmidt M, Hamilton-Nelson K, Wheeler N, Lin H, Gangadharan P, Qu L, Clark K, Kuzma AB, Lee WP, Cantwell L, Nicaretta H, Alzheimer’s Disease Sequencing Project, Haines J, Farrer L, Seshadri S, [...] Wang LS
Nat Commun, 15(1):684, 23 Jan 2024
Cited by: 1 article | PMID: 38263370 | PMCID: PMC10805795
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Differential chromatin accessibility and transcriptional dynamics define breast cancer subtypes and their lineages
Iglesia MD, Jayasinghe RG, Chen S, Terekhanova NV, Herndon JM, Storrs E, Karpova A, Zhou DC, Al Deen NN, Shinkle AT, Lu RJ, Caravan W, Houston A, Zhao Y, Sato K, Lal P, Street C, Rodrigues FM, Southard-Smith AN, [...] Ding L
bioRxiv, 02 Nov 2023
Cited by: 0 articles | PPR: PPR752729
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Ultra-Deep Sequencing Reveals the Mutational Landscape of Classical Hodgkin Lymphoma.
Gomez F, Fisk B, McMichael JF, Mosior M, Foltz JA, Skidmore ZL, Duncavage EJ, Miller CA, Abel H, Li YS, Russler-Germain DA, Krysiak K, Watkins MP, Ramirez CA, Schmidt A, Martins Rodrigues F, Trani L, Khanna A, Wagner JA, [...] Griffith OL
Cancer Res Commun, 3(11):2312-2330, 01 Nov 2023
Cited by: 4 articles | PMID: 37910143 | PMCID: PMC10648575
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Genomic landscape of TP53-mutated myeloid malignancies.
Abel HJ, Oetjen KA, Miller CA, Ramakrishnan SM, Day RB, Helton NM, Fronick CC, Fulton RS, Heath SE, Tarnawsky SP, Nonavinkere Srivatsan S, Duncavage EJ, Schroeder MC, Payton JE, Spencer DH, Walter MJ, Westervelt P, DiPersio JF, Ley TJ, Link DC
Blood Adv, 7(16):4586-4598, 01 Aug 2023
Cited by: 8 articles | PMID: 37339484 | PMCID: PMC10425686
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Pan-conserved segment tags identify ultra-conserved sequences across assemblies in the human pangenome.
Lee H, Greer SU, Pavlichin DS, Zhou B, Urban AE, Weissman T, Human Pangenome Reference Consortium, Ji HP
Cell Rep Methods, 3(8):100543, 02 Aug 2023
Cited by: 2 articles | PMID: 37671027 | PMCID: PMC10475782
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Utility of targeted gene sequencing to differentiate myeloid malignancies from other cytopenic conditions.
DeZern AE, Goll JB, Lindsley RC, Bejar R, Wilson SH, Hebert D, Deeg J, Zhang L, Gore S, Al Baghdadi T, Maciejewski J, Liu J, Padron E, Komrojki R, Saber W, Abel G, Kroft SH, Harrington A, Grimes T, [...] Walter MJ
Blood Adv, 7(14):3749-3759, 01 Jul 2023
Cited by: 1 article | PMID: 36947201 | PMCID: PMC10368770
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Author Correction: Disruption of chromatin folding domains by somatic genomic rearrangements in human cancer.
Akdemir KC, Le VT, Chandran S, Li Y, Verhaak RG, Beroukhim R, Campbell PJ, Chin L, Dixon JR, Futreal PA, PCAWG Structural Variation Working Group, PCAWG Consortium
Nat Genet, 55(6):1079, 01 Jun 2023
Cited by: 1 article | PMID: 36944735 | PMCID: PMC10260394
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Author Correction: Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing.
Cortés-Ciriano I, Lee JJ, Xi R, Jain D, Jung YL, Yang L, Gordenin D, Klimczak LJ, Zhang CZ, Pellman DS, PCAWG Structural Variation Working Group, Park PJ, PCAWG Consortium
Nat Genet, 55(6):1076, 01 Jun 2023
Cited by: 2 articles | PMID: 36944733 | PMCID: PMC10260391
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Author Correction: Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition.
Rodriguez-Martin B, Alvarez EG, Baez-Ortega A, Zamora J, Supek F, Demeulemeester J, Santamarina M, Ju YS, Temes J, Garcia-Souto D, Detering H, Li Y, Rodriguez-Castro J, Dueso-Barroso A, Bruzos AL, Dentro SC, Blanco MG, Contino G, Ardeljan D, [...] PCAWG Consortium
Nat Genet, 55(6):1080, 01 Jun 2023
Cited by: 1 article | PMID: 36944736 | PMCID: PMC10260396
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Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers.
Yuan Y, Ju YS, Kim Y, Li J, Wang Y, Yoon CJ, Yang Y, Martincorena I, Creighton CJ, Weinstein JN, Xu Y, Han L, Kim HL, Nakagawa H, Park K, Campbell PJ, Liang H, PCAWG Consortium
Nat Genet, 55(6):1078, 01 Jun 2023
Cited by: 1 article | PMID: 36944732 | PMCID: PMC10260393
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Increased mutation and gene conversion within human segmental duplications.
Vollger MR, Dishuck PC, Harvey WT, DeWitt WS, Guitart X, Goldberg ME, Rozanski AN, Lucas J, Asri M, Human Pangenome Reference Consortium, Munson KM, Lewis AP, Hoekzema K, Logsdon GA, Porubsky D, Paten B, Harris K, Hsieh P, Eichler EE
Nature, 617(7960):325-334, 10 May 2023
Cited by: 32 articles | PMID: 37165237 | PMCID: PMC10172114
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Author Correction: The landscape of viral associations in human cancers.
Zapatka M, Borozan I, Brewer DS, Iskar M, Grundhoff A, Alawi M, Desai N, Sültmann H, Moch H, PCAWG Pathogens, Cooper CS, Eils R, Ferretti V, Lichter P, PCAWG Consortium
Nat Genet, 55(6):1077, 01 Jun 2023
Cited by: 0 articles | PMID: 36944734 | PMCID: PMC10260395
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Persistent Molecular Disease in Adult Patients With AML Evaluated With Whole-Exome and Targeted Error-Corrected DNA Sequencing.
Slade MJ, Ghasemi R, O'Laughlin M, Burton T, Fulton RS, Abel HJ, Duncavage EJ, Ley TJ, Jacoby MA, Spencer DH
JCO Precis Oncol, 7:e2200559, 01 Apr 2023
Cited by: 2 articles | PMID: 37079859 | PMCID: PMC10530963
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A draft human pangenome reference.
Liao WW, Asri M, Ebler J, Doerr D, Haukness M, Hickey G, Lu S, Lucas JK, Monlong J, Abel HJ, Buonaiuto S, Chang XH, Cheng H, Chu J, Colonna V, Eizenga JM, Feng X, Fischer C, Fulton RS, [...] Paten B
Nature, 617(7960):312-324, 10 May 2023
Cited by: 263 articles | PMID: 37165242 | PMCID: PMC10172123
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Recombination between heterologous human acrocentric chromosomes.
Guarracino A, Buonaiuto S, de Lima LG, Potapova T, Rhie A, Koren S, Rubinstein B, Fischer C, Human Pangenome Reference Consortium, Gerton JL, Phillippy AM, Colonna V, Garrison E
Nature, 617(7960):335-343, 10 May 2023
Cited by: 37 articles | PMID: 37165241 | PMCID: PMC10172130
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Pangenome graph construction from genome alignments with Minigraph-Cactus.
Hickey G, Monlong J, Ebler J, Novak AM, Eizenga JM, Gao Y, Human Pangenome Reference Consortium, Marschall T, Li H, Paten B
Nat Biotechnol, 42(4):663-673, 10 May 2023
Cited by: 45 articles | PMID: 37165083 | PMCID: PMC10638906
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Gaps and complex structurally variant loci in phased genome assemblies.
Porubsky D, Vollger MR, Harvey WT, Rozanski AN, Ebert P, Hickey G, Hasenfeld P, Sanders AD, Stober C, Human Pangenome Reference Consortium, Korbel JO, Paten B, Marschall T, Eichler EE
Genome Res, 33(4):496-510, 01 Apr 2023
Cited by: 21 articles | PMID: 37164484 | PMCID: PMC10234299
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Author Correction: Butler enables rapid cloud-based analysis of thousands of human genomes.
Yakneen S, Waszak SM, PCAWG Technical Working Group, Gertz M, Korbel JO, PCAWG Consortium
Nat Biotechnol, 41(4):577, 01 Apr 2023
Cited by: 0 articles | PMID: 36944844 | PMCID: PMC10110458
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Author Correction: The repertoire of mutational signatures in human cancer.
Alexandrov LB, Kim J, Haradhvala NJ, Huang MN, Tian Ng AW, Wu Y, Boot A, Covington KR, Gordenin DA, Bergstrom EN, Islam SMA, Lopez-Bigas N, Klimczak LJ, McPherson JR, Morganella S, Sabarinathan R, Wheeler DA, Mustonen V, PCAWG Mutational Signatures Working Group, [...] PCAWG Consortium
Nature, 614(7948):E41, 01 Feb 2023
Cited by: 3 articles | PMID: 36697836 | PMCID: PMC9931578
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Author Correction: Genomic basis for RNA alterations in cancer.
PCAWG Transcriptome Core Group, Calabrese C, Davidson NR, Demircioğlu D, Fonseca NA, He Y, Kahles A, Lehmann KV, Liu F, Shiraishi Y, Soulette CM, Urban L, Greger L, Li S, Liu D, Perry MD, Xiang Q, Zhang F, Zhang J, [...] PCAWG Consortium
Nature, 614(7948):E37, 01 Feb 2023
Cited by: 0 articles | PMID: 36697831 | PMCID: PMC9931574
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Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.
Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, Shuai S, Lanzós A, Herrmann C, Maruvka YE, [...] PCAWG Consortium
Nature, 614(7948):E40, 01 Feb 2023
Cited by: 9 articles | PMID: 36697832 | PMCID: PMC9931557
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