| Year |
Citation |
Score |
| 2023 |
Janssens DH, Duran M, Otto DJ, Kirkey D, Yi JS, Meshinchi S, Sarthy JF, Ahmad K, Henikoff S. KMT2A oncoproteins induce epigenetic resistance to targeted therapies. Biorxiv : the Preprint Server For Biology. PMID 38234854 DOI: 10.1101/2023.12.29.573681 |
0.518 |
|
| 2023 |
Anderson JT, Henikoff S, Ahmad K. Chromosome-specific maturation of the epigenome in the male germline. Elife. 12. PMID 38032818 DOI: 10.7554/eLife.89373 |
0.609 |
|
| 2023 |
Ahmad K, Brahma S, Henikoff S. Epigenetic pioneering by SWI/SNF family remodelers. Molecular Cell. PMID 38016477 DOI: 10.1016/j.molcel.2023.10.045 |
0.829 |
|
| 2023 |
Janssens DH, Greene JE, Wu SJ, Codomo CA, Minot SS, Furlan SN, Ahmad K, Henikoff S. Scalable single-cell profiling of chromatin modifications with sciCUT&Tag. Nature Protocols. PMID 37935964 DOI: 10.1038/s41596-023-00905-9 |
0.553 |
|
| 2023 |
Anderson J, Henikoff S, Ahmad K. Chromosome-specific maturation of the epigenome in the Drosophila male germline. Biorxiv : the Preprint Server For Biology. PMID 37873332 DOI: 10.1101/2023.02.24.529909 |
0.61 |
|
| 2023 |
Henikoff S, Henikoff JG, Ahmad K, Paranal RM, Janssens DH, Russell ZR, Szulzewsky F, Kugel S, Holland EC. Epigenomic analysis of formalin-fixed paraffin-embedded samples by CUT&Tag. Nature Communications. 14: 5930. PMID 37739938 DOI: 10.1038/s41467-023-41666-z |
0.501 |
|
| 2023 |
Wooten M, Takushi B, Ahmad K, Henikoff S. Aclarubicin stimulates RNA polymerase II elongation at closely spaced divergent promoters. Science Advances. 9: eadg3257. PMID 37315134 DOI: 10.1126/sciadv.adg3257 |
0.802 |
|
| 2023 |
Wooten M, Takushi B, Ahmad K, Henikoff S. Aclarubicin stimulates RNA polymerase II elongation at closely spaced divergent promoters. Biorxiv : the Preprint Server For Biology. PMID 36712130 DOI: 10.1101/2023.01.09.523323 |
0.806 |
|
| 2022 |
Ahmad K, Henikoff S. The embryo as a for the epigenome. Faculty Reviews. 11: 40. PMID 36644296 DOI: 10.12703/r/11-40 |
0.627 |
|
| 2022 |
De Sarkar N, Patton RD, Doebley AL, Hanratty B, Adil M, Kreitzman AJ, Sarthy JF, Ko M, Brahma S, Meers MP, Janssens DH, Ang LS, Coleman IM, Bose A, Dumpit RF, ... ... Ahmad K, et al. Nucleosome patterns in circulating tumor DNA reveal transcriptional regulation of advanced prostate cancer phenotypes. Cancer Discovery. PMID 36399432 DOI: 10.1158/2159-8290.CD-22-0692 |
0.782 |
|
| 2022 |
Khyzha N, Henikoff S, Ahmad K. Profiling RNA at chromatin targets in situ by antibody-targeted tagmentation. Nature Methods. PMID 36192462 DOI: 10.1038/s41592-022-01618-9 |
0.537 |
|
| 2022 |
Henikoff S, Ahmad K. In situ tools for chromatin structural epigenomics. Protein Science : a Publication of the Protein Society. e4458. PMID 36170035 DOI: 10.1002/pro.4458 |
0.573 |
|
| 2022 |
Chen T, Wei X, Courret C, Cui M, Cheng L, Wu J, Ahmad K, Larracuente AM, Rong YS. The nanoCUT&RUN technique visualizes telomeric chromatin in Drosophila. Plos Genetics. 18: e1010351. PMID 36048878 DOI: 10.1371/journal.pgen.1010351 |
0.564 |
|
| 2022 |
Ahmad K, Henikoff S, Ramachandran S. Managing the Steady State Chromatin Landscape by Nucleosome Dynamics. Annual Review of Biochemistry. PMID 35303789 DOI: 10.1146/annurev-biochem-032620-104508 |
0.715 |
|
| 2022 |
Janssens DH, Otto DJ, Meers MP, Setty M, Ahmad K, Henikoff S. CUT&Tag2for1: a modified method for simultaneous profiling of the accessible and silenced regulome in single cells. Genome Biology. 23: 81. PMID 35300717 DOI: 10.1186/s13059-022-02642-w |
0.768 |
|
| 2021 |
Janssens DH, Meers MP, Wu SJ, Babaeva E, Meshinchi S, Sarthy JF, Ahmad K, Henikoff S. Automated CUT&Tag profiling of chromatin heterogeneity in mixed-lineage leukemia. Nature Genetics. PMID 34663924 DOI: 10.1038/s41588-021-00941-9 |
0.807 |
|
| 2021 |
Ahmad K, Henikoff S. The H3.3K27M oncohistone antagonizes reprogramming in Drosophila. Plos Genetics. 17: e1009225. PMID 34280185 DOI: 10.1371/journal.pgen.1009225 |
0.573 |
|
| 2021 |
Henikoff S, Henikoff JG, Ahmad K. Simplified Epigenome Profiling Using Antibody-tethered Tagmentation. Bio-Protocol. 11: e4043. PMID 34250209 DOI: 10.21769/BioProtoc.4043 |
0.533 |
|
| 2021 |
Wu SJ, Furlan SN, Mihalas AB, Kaya-Okur HS, Feroze AH, Emerson SN, Zheng Y, Carson K, Cimino PJ, Keene CD, Sarthy JF, Gottardo R, Ahmad K, Henikoff S, Patel AP. Single-cell CUT&Tag analysis of chromatin modifications in differentiation and tumor progression. Nature Biotechnology. PMID 33846646 DOI: 10.1038/s41587-021-00865-z |
0.538 |
|
| 2021 |
Rao S, Ahmad K, Ramachandran S. Cooperative binding between distant transcription factors is a hallmark of active enhancers. Molecular Cell. PMID 33705711 DOI: 10.1016/j.molcel.2021.02.014 |
0.578 |
|
| 2020 |
Henikoff S, Henikoff JG, Kaya-Okur HS, Ahmad K. Efficient chromatin accessibility mapping by nucleosome-tethered tagmentation. Elife. 9. PMID 33191916 DOI: 10.7554/eLife.63274 |
0.577 |
|
| 2020 |
Kaya-Okur HS, Janssens DH, Henikoff JG, Ahmad K, Henikoff S. Efficient low-cost chromatin profiling with CUT&Tag. Nature Protocols. PMID 32913232 DOI: 10.1038/s41596-020-0373-x |
0.59 |
|
| 2020 |
Sarthy JF, Meers MP, Janssens DH, Henikoff JG, Feldman H, Paddison PJ, Lockwood CM, Vitanza NA, Olson JM, Ahmad K, Henikoff S. Histone deposition pathways determine the chromatin landscapes of H3.1 and H3.3 K27M oncohistones. Elife. 9. PMID 32902381 DOI: 10.7554/Elife.61090 |
0.799 |
|
| 2020 |
Henikoff S, Ahmad K. Evolution: Heterochromatin Diversity in Early-Branching Land Plants. Current Biology : Cb. 30: R161-R163. PMID 32097641 DOI: 10.1016/j.cub.2019.12.044 |
0.486 |
|
| 2019 |
Henikoff S, Ahmad K. Nucleosomes remember where they were. Proceedings of the National Academy of Sciences of the United States of America. PMID 31511423 DOI: 10.1073/pnas.1914581116 |
0.682 |
|
| 2019 |
Ahmad K, Spens AE. Separate Polycomb Response Elements control chromatin state and activation of the vestigial gene. Plos Genetics. 15: e1007877. PMID 31425502 DOI: 10.1371/journal.pgen.1007877 |
0.794 |
|
| 2019 |
Kaya-Okur HS, Wu SJ, Codomo CA, Pledger ES, Bryson TD, Henikoff JG, Ahmad K, Henikoff S. CUT&Tag for efficient epigenomic profiling of small samples and single cells. Nature Communications. 10: 1930. PMID 31036827 DOI: 10.1038/s41467-019-09982-5 |
0.627 |
|
| 2019 |
Sarthy JF, Henikoff S, Ahmad K. Chromatin Bottlenecks in Cancer. Trends in Cancer. 5: 183-194. PMID 30898265 DOI: 10.1016/j.trecan.2019.01.003 |
0.584 |
|
| 2018 |
Janssens DH, Wu SJ, Sarthy JF, Meers MP, Myers CH, Olson JM, Ahmad K, Henikoff S. Automated in situ chromatin profiling efficiently resolves cell types and gene regulatory programs. Epigenetics & Chromatin. 11: 74. PMID 30577869 DOI: 10.1186/S13072-018-0243-8 |
0.821 |
|
| 2018 |
Ahmad K, Henikoff S. No strand left behind. Science (New York, N.Y.). 361: 1311-1312. PMID 30262484 DOI: 10.1126/science.aav0871 |
0.424 |
|
| 2017 |
Ramachandran S, Ahmad K, Henikoff S. Transcription and Remodeling Produce Asymmetrically Unwrapped Nucleosomal Intermediates. Molecular Cell. PMID 29225036 DOI: 10.1016/J.Molcel.2017.11.015 |
0.748 |
|
| 2017 |
Kasinathan B, Ahmad K, Malik HS. Waddington Redux: De Novo Mutations Underlie the Genetic Assimilation of Stress-Induced Phenocopies in Drosophila melanogaster. Genetics. 207: 49-51. PMID 28874454 DOI: 10.1534/genetics.117.205039 |
0.528 |
|
| 2017 |
Ramachandran S, Ahmad K, Henikoff S. Capitalizing on disaster: Establishing chromatin specificity behind the replication fork. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. PMID 28133760 DOI: 10.1002/Bies.201600150 |
0.756 |
|
| 2015 |
Orsi GA, Kasinathan S, Zentner GE, Henikoff S, Ahmad K. Mapping regulatory factors by immunoprecipitation from native chromatin. Current Protocols in Molecular Biology / Edited by Frederick M. Ausubel ... [Et Al.]. 110: 21.31.1-21.31.25. PMID 25827087 DOI: 10.1002/0471142727.mb2131s110 |
0.764 |
|
| 2014 |
Ahmad K, Katryniok C, Scholz B, Merkens J, Löscher D, Marschalek R, Steinhilber D. Inhibition of class I HDACs abrogates the dominant effect of MLL-AF4 by activation of wild-type MLL. Oncogenesis. 3: e127. PMID 25402609 DOI: 10.1038/oncsis.2014.39 |
0.32 |
|
| 2014 |
Orsi GA, Kasinathan S, Hughes KT, Saminadin-Peter S, Henikoff S, Ahmad K. High-resolution mapping defines the cooperative architecture of Polycomb response elements. Genome Research. 24: 809-20. PMID 24668908 DOI: 10.1101/gr.163642.113 |
0.68 |
|
| 2014 |
Kasinathan S, Orsi GA, Zentner GE, Ahmad K, Henikoff S. High-resolution mapping of transcription factor binding sites on native chromatin. Nature Methods. 11: 203-9. PMID 24336359 DOI: 10.1038/nmeth.2766 |
0.782 |
|
| 2012 |
Schneiderman JI, Orsi GA, Hughes KT, Loppin B, Ahmad K. Nucleosome-depleted chromatin gaps recruit assembly factors for the H3.3 histone variant. Proceedings of the National Academy of Sciences of the United States of America. 109: 19721-6. PMID 23150573 DOI: 10.1073/pnas.1206629109 |
0.818 |
|
| 2012 |
Talbert PB, Ahmad K, Almouzni G, Ausió J, Berger F, Bhalla PL, Bonner WM, Cande WZ, Chadwick BP, Chan SW, Cross GA, Cui L, Dimitrov SI, Doenecke D, Eirin-López JM, et al. A unified phylogeny-based nomenclature for histone variants. Epigenetics & Chromatin. 5: 7. PMID 22650316 DOI: 10.1186/1756-8935-5-7 |
0.69 |
|
| 2012 |
Greil F, Ahmad K. Nucleolar dominance of the Y chromosome in Drosophila melanogaster. Genetics. 191: 1119-28. PMID 22649076 DOI: 10.1534/genetics.112.141242 |
0.789 |
|
| 2010 |
Roy S, Ernst J, Kharchenko PV, Kheradpour P, Negre N, Eaton ML, Landolin JM, Bristow CA, Ma L, Lin MF, Washietl S, Arshinoff BI, Ay F, Meyer PE, ... ... Ahmad K, et al. Identification of functional elements and regulatory circuits by Drosophila modENCODE. Science (New York, N.Y.). 330: 1787-97. PMID 21177974 DOI: 10.1126/Science.1198374 |
0.714 |
|
| 2010 |
Schneiderman JI, Goldstein S, Ahmad K. Perturbation analysis of heterochromatin-mediated gene silencing and somatic inheritance. Plos Genetics. 6: e1001095. PMID 20838586 DOI: 10.1371/journal.pgen.1001095 |
0.806 |
|
| 2010 |
Nègre N, Brown CD, Shah PK, Kheradpour P, Morrison CA, Henikoff JG, Feng X, Ahmad K, Russell S, White RA, Stein L, Henikoff S, Kellis M, White KP. A comprehensive map of insulator elements for the Drosophila genome. Plos Genetics. 6: e1000814. PMID 20084099 DOI: 10.1371/Journal.Pgen.1000814 |
0.609 |
|
| 2009 |
Sakai A, Schwartz BE, Goldstein S, Ahmad K. Transcriptional and developmental functions of the H3.3 histone variant in Drosophila. Current Biology : Cb. 19: 1816-20. PMID 19781938 DOI: 10.1016/j.cub.2009.09.021 |
0.725 |
|
| 2009 |
Schneiderman JI, Sakai A, Goldstein S, Ahmad K. The XNP remodeler targets dynamic chromatin in Drosophila. Proceedings of the National Academy of Sciences of the United States of America. 106: 14472-7. PMID 19706533 DOI: 10.1073/pnas.0905816106 |
0.801 |
|
| 2009 |
Henikoff S, Henikoff JG, Sakai A, Loeb GB, Ahmad K. Genome-wide profiling of salt fractions maps physical properties of chromatin. Genome Research. 19: 460-9. PMID 19088306 DOI: 10.1101/gr.087619.108 |
0.733 |
|
| 2007 |
Rando OJ, Ahmad K. Rules and regulation in the primary structure of chromatin. Current Opinion in Cell Biology. 19: 250-6. PMID 17466507 DOI: 10.1016/J.Ceb.2007.04.006 |
0.565 |
|
| 2006 |
Schwartz BE, Ahmad K. 2. Chromatin assembly with H3 histones: full throttle down multiple pathways. Current Topics in Developmental Biology. 74: 31-55. PMID 16860664 DOI: 10.1016/S0070-2153(06)74002-9 |
0.677 |
|
| 2005 |
Henikoff S, Ahmad K. Assembly of variant histones into chromatin. Annual Review of Cell and Developmental Biology. 21: 133-53. PMID 16212490 DOI: 10.1146/annurev.cellbio.21.012704.133518 |
0.658 |
|
| 2005 |
Schwartz BE, Ahmad K. Transcriptional activation triggers deposition and removal of the histone variant H3.3. Genes & Development. 19: 804-14. PMID 15774717 DOI: 10.1101/gad.1259805 |
0.687 |
|
| 2004 |
Henikoff S, McKittrick E, Ahmad K. Epigenetics, histone H3 variants, and the inheritance of chromatin states. Cold Spring Harbor Symposia On Quantitative Biology. 69: 235-43. PMID 16117654 DOI: 10.1101/sqb.2004.69.235 |
0.561 |
|
| 2004 |
Ahmad K. The end in sight. Molecular Cell. 15: 494-5. PMID 15327765 DOI: 10.1016/j.molcel.2004.08.012 |
0.426 |
|
| 2004 |
Henikoff S, Furuyama T, Ahmad K. Histone variants, nucleosome assembly and epigenetic inheritance. Trends in Genetics : Tig. 20: 320-6. PMID 15219397 DOI: 10.1016/j.tig.2004.05.004 |
0.659 |
|
| 2004 |
McKittrick E, Gafken PR, Ahmad K, Henikoff S. Histone H3.3 is enriched in covalent modifications associated with active chromatin. Proceedings of the National Academy of Sciences of the United States of America. 101: 1525-30. PMID 14732680 DOI: 10.1073/Pnas.0308092100 |
0.649 |
|
| 2004 |
Ahmad K, Golic KG. Analyzing chromosome function by high frequency formation of dicentric chromosomes in vivo. Methods in Molecular Biology (Clifton, N.J.). 247: 333-41. PMID 14707357 DOI: 10.1385/1-59259-665-7:333 |
0.661 |
|
| 2003 |
Vermaak D, Ahmad K, Henikoff S. Maintenance of chromatin states: an open-and-shut case. Current Opinion in Cell Biology. 15: 266-74. PMID 12787767 DOI: 10.1016/S0955-0674(03)00043-7 |
0.626 |
|
| 2002 |
Ahmad K, Henikoff S. Epigenetic consequences of nucleosome dynamics. Cell. 111: 281-4. PMID 12419239 DOI: 10.1016/S0092-8674(02)01081-4 |
0.615 |
|
| 2002 |
Ahmad K, Henikoff S. Histone H3 variants specify modes of chromatin assembly. Proceedings of the National Academy of Sciences of the United States of America. 99: 16477-84. PMID 12177448 DOI: 10.1073/pnas.172403699 |
0.636 |
|
| 2002 |
Ahmad K, Henikoff S. The histone variant H3.3 marks active chromatin by replication-independent nucleosome assembly. Molecular Cell. 9: 1191-200. PMID 12086617 DOI: 10.1016/S1097-2765(02)00542-7 |
0.613 |
|
| 2002 |
Ahmad K, Henikoff S. The synthesis and crystal structure of {N-dodecyl-N-pyridin-2-ylmethylene]amine} dichloro palladium and its preliminary evaluation as a catalyst for ethylene polymerization Inorganic Chemistry Communications. 5: 724-726. DOI: 10.1016/S1387-7003(02)00551-8 |
0.341 |
|
| 2001 |
Borodin PM, Henikoff S, Ahmad K, Malik HS. Speciation and centromere evolution [3] (multiple letters) Science. 294: 2478-2480. PMID 11770517 DOI: 10.1126/science.294.5551.2478 |
0.593 |
|
| 2001 |
Henikoff S, Ahmad K, Malik HS. The centromere paradox: stable inheritance with rapidly evolving DNA. Science (New York, N.Y.). 293: 1098-102. PMID 11498581 DOI: 10.1126/science.1062939 |
0.72 |
|
| 2001 |
Ahmad K, Henikoff S. Modulation of a transcription factor counteracts heterochromatic gene silencing in Drosophila. Cell. 104: 839-47. PMID 11290322 DOI: 10.1016/S0092-8674(01)00281-1 |
0.607 |
|
| 2001 |
Ahmad K, Henikoff S. Centromeres are specialized replication domains in heterochromatin. The Journal of Cell Biology. 153: 101-10. PMID 11285277 DOI: 10.1083/jcb.153.1.101 |
0.628 |
|
| 2000 |
Henikoff S, Ahmad K, Platero JS, van Steensel B. Heterochromatic deposition of centromeric histone H3-like proteins. Proceedings of the National Academy of Sciences of the United States of America. 97: 716-21. PMID 10639145 DOI: 10.1073/pnas.97.2.716 |
0.618 |
|
| 1999 |
Platero JS, Ahmad K, Henikoff S. A distal heterochromatic block displays centromeric activity when detached from a natural centromere. Molecular Cell. 4: 995-1004. PMID 10635324 DOI: 10.1016/S1097-2765(00)80228-2 |
0.544 |
|
| 1999 |
Buchwitz BJ, Ahmad K, Moore LL, Roth MB, Henikoff S. A histone-H3-like protein in C. elegans. Nature. 401: 547-8. PMID 10524621 DOI: 10.1038/44062 |
0.588 |
|
| 1999 |
Ahmad K, Golic KG. Telomere loss in somatic cells of Drosophila causes cell cycle arrest and apoptosis. Genetics. 151: 1041-51. PMID 10049921 |
0.671 |
|
| 1998 |
Ahmad K, Golic KG. The transmission of fragmented chromosomes in Drosophila melanogaster. Genetics. 148: 775-92. PMID 9504924 |
0.658 |
|
| 1996 |
Ahmad K, Golic KG. Somatic reversion of chromosomal position effects in Drosophila melanogaster. Genetics. 144: 657-70. PMID 8889528 |
0.699 |
|
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