Kathleen Burns

Professor

20012019
If you made any changes in Pure, your changes will be visible here soon.

Research Output 2001 2019

2019

Alu insertion variants alter mRNA splicing

Payer, L. M., Steranka, J. P., Ardeljan, D., Walker, J. N., Fitzgerald, K., Calabresi, P., Cooper, T. A. & Burns, K., Jan 10 2019, In : Nucleic Acids Research. 47, 1, p. 421-431 11 p.

Research output: Contribution to journalArticle

Exons
Messenger RNA
RNA Splicing
Retroelements
Multiple Sclerosis

Long Interspersed Nuclear Element 1 Retrotransposons Become Deregulated during the Development of Ovarian Cancer Precursor Lesions

Pisanic, T. R., Asaka, S., Lin, S. F., Yen, T. T., Sun, H., Bahadirli-Talbott, A., Wang, T. H., Burns, K., Wang, T-L. & Shih, I. M., Mar 1 2019, In : American Journal of Pathology. 189, 3, p. 513-520 8 p.

Research output: Contribution to journalArticle

Retroelements
Ovarian Neoplasms
Carcinoma in Situ
Carcinoma
Fallopian Tubes

SQuIRE reveals locus-specific regulation of interspersed repeat expression

Yang, W. R., Ardeljan, D., Pacyna, C. N., Payer, L. M. & Burns, K., Mar 18 2019, In : Nucleic acids research. 47, 5, p. e27

Research output: Contribution to journalArticle

Open Access
DNA Transposable Elements
Software
RNA
RNA Splicing
Gene Expression

Transposon insertion profiling by sequencing (TIPseq) for mapping LINE-1 insertions in the human genome

Steranka, J. P., Tang, Z., Grivainis, M., Huang, C. R. L., Payer, L. M., Rego, F. O. R., Miller, T. L. A., Galante, P. A. F., Ramaswami, S., Heguy, A., Fenyö, D., Boeke, J. D. & Burns, K., Mar 8 2019, In : Mobile DNA. 10, 1, 8.

Research output: Contribution to journalArticle

Open Access
DNA Transposable Elements
Human Genome
DNA
Long Interspersed Nucleotide Elements
Genome
2018

Dissection of affinity captured LINE-1 macromolecular complexes

Taylor, M. S., Altukhov, I., Molloy, K. R., Mita, P., Jiang, H., Adney, E. M., Wudzinska, A., Badri, S., Ischenko, D., Eng, G., Burns, K., Fenyö, D., Chait, B. T., Alexeev, D., Rout, M. P., Boeke, J. D. & LaCava, J., Jan 8 2018, In : eLife. 7, e30094.

Research output: Contribution to journalArticle

Macromolecular Substances
Dissection
Ribonucleoproteins
Long Interspersed Nucleotide Elements
RNA

Editorial overview: Genome architecture and expression: Mobile elements at work

Lisch, D. & Burns, K., Apr 1 2018, In : Current Opinion in Genetics and Development. 49, p. iv-v

Research output: Contribution to journalEditorial

Genome

Familial monophasic acute transverse myelitis due to the pathogenic variant in VPS37A

Mealy, M. A., Nam, T. S., Pardo, S. J., Pardo-Villamizar, C. A., Sobreira, N., Avramopoulos, D., Valle, D., Burns, K. & Levy, M., Feb 1 2018, In : Neurology: Genetics. 4, 1, e213.

Research output: Contribution to journalArticle

Transverse Myelitis
Siblings
Exome
Leg
Neuromyelitis Optica

Systemic depletion of lymphocytes following focal radiation to the brain in a murine model

Piotrowski, A. F., Nirschl, T. R., Velarde, E., Blosser, L., Ganguly, S., Burns, K., Luznik, L., Wong, J., Drake, C. G. & Grossman, S. A., May 4 2018, (Accepted/In press) In : OncoImmunology.

Research output: Contribution to journalArticle

Lymphocyte Depletion
Lymphocyte Count
Lymphopenia
Radiation
Lymph Nodes

Ten things you should know about transposable elements

Bourque, G., Burns, K., Gehring, M., Gorbunova, V., Seluanov, A., Hammell, M., Imbeault, M., Izsvák, Z., Levin, H. L., Macfarlan, T. S., Mager, D. L. & Feschotte, C., Nov 19 2018, In : Genome biology. 19, 1, 1 p.

Research output: Contribution to journalReview article

Open Access
DNA Transposable Elements
transposons
genome
Genome Components
genomics

The evolution of earned, transparent, and quantifiable faculty salary compensation: The Johns Hopkins pathology experience

Burns, K., Borowitz, M. J., Carroll, K. C., Gocke, C., Hooper, J., Amukele, T. K., Tobian, A. A., Valentine, A., Kahl, R., Rodas-Eral, V., Boitnott, J. K., Jackson, J. B., Sanfilippo, F. & Hruban, R. H., Jan 1 2018, In : Academic Pathology. 5

Research output: Contribution to journalArticle

Salaries and Fringe Benefits
Pathology
Reward
Remuneration
Quality Improvement
2017

Genomic characterization of chromosome translocations in patients with T/myeloid mixed-phenotype acute leukemia

Pallavajjalla, A., Kim, D., Li, T., Ghiaur, G., Jones, R. J., Burns, K., Salzberg, S. L. & Ning, Y., Sep 8 2017, (Accepted/In press) In : Leukemia and Lymphoma. p. 1-8 8 p.

Research output: Contribution to journalArticle

Leukemia
Chromosomes
Phenotype
Transcriptome
RNA Sequence Analysis

Human transposon insertion profiling: Analysis, visualization and identification of somatic LINE-1 insertions in ovarian cancer

Tang, Z., Steranka, J. P., Ma, S., Grivainis, M., Rodić, N., Huang, C. R. L., Shih, I. M., Wang, T-L., Boeke, J. D., Fenyö, D. & Burns, K., Jan 31 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 5, p. E733-E740

Research output: Contribution to journalArticle

Human Genome
Ovarian Neoplasms
Long Interspersed Nucleotide Elements
Retroelements
DNA Transposable Elements

Insertion and deletion polymorphisms of the ancient AluS family in the human genome

Kryatova, M. S., Steranka, J. P., Burns, K. & Payer, L. M., Apr 24 2017, In : Mobile DNA. 8, 1, 6.

Research output: Contribution to journalArticle

Human Genome
Reverse Transcription
Endonucleases
Alleles
Alu Elements

Structural variants caused by Alu insertions are associated with risks for many human diseases

Payer, L. M., Steranka, J. P., Yang, W. R., Kryatova, M., Medabalimi, S., Ardeljan, D., Liu, C., Boeke, J. D., Avramopoulos, D. & Burns, K., May 16 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 20, p. E3984-E3992

Research output: Contribution to journalArticle

Alu Elements
Inborn Genetic Diseases
Genome-Wide Association Study
DNA
Single Nucleotide Polymorphism

The human long interspersed element-1 retrotransposon: An emerging biomarker of Neoplasia

Ardeljan, D., Taylor, M. S., Ting, D. T. & Burns, K., Apr 1 2017, In : Clinical Chemistry. 63, 4, p. 816-822 7 p.

Research output: Contribution to journalReview article

Long Interspersed Nucleotide Elements
Retroelements
Biomarkers
RNA
Methylation

Toward the human cellular microRNAome

McCall, M. N., Kim, M. S., Adil, M., Patil, A. H., Lu, Y., Mitchell, C. J., Leal-Rojas, P., Xu, J., Kumar, M., Dawson, V., Dawson, T. M., Baras, A., Rosenberg, A., Arking, D., Burns, K., Pandey, A. & Halushka, M. K., Oct 1 2017, In : Genome Research. 27, 10, p. 1769-1781 13 p.

Research output: Contribution to journalArticle

MicroRNAs
RNA
Cell Line
Regulator Genes
Adipose Tissue

Transposable elements in cancer

Burns, K., Jul 1 2017, In : Nature Reviews Cancer. 17, 7, p. 415-424 10 p.

Research output: Contribution to journalReview article

DNA Transposable Elements
Genome
Neoplasms
Retroelements
Carcinogenesis
2016

A map of mobile DNA insertions in the NCI-60 human cancer cell panel

Zampella, J. G., Rodić, N., Yang, W. R., Huang, C. R. L., Welch, J., Gnanakkan, V. P., Cornish, T. C., Boeke, J. D. & Burns, K., Oct 31 2016, In : Mobile DNA. 7, 1, p. 1-11 11 p.

Research output: Contribution to journalArticle

National Cancer Institute (U.S.)
DNA
Neoplasm Genes
Neoplasms
Genome

A robust nonlinear tissue-component discrimination method for computational pathology

Sarnecki, J. S., Burns, K., Wood, L. D., Waters, K. M., Hruban, R. H., Wirtz, D. & Wu, P. H., Apr 1 2016, In : Laboratory Investigation. 96, 4, p. 450-458 9 p.

Research output: Contribution to journalArticle

Pathology
Color
Tissue Fixation
Biomedical Research
Immunohistochemistry

Characterization of L1-ribonucleoprotein particles

Taylor, M. S., La Cava, J., Dai, L., Mita, P., Burns, K., Rout, M. P. & Boeke, J. D., 2016, Methods in Molecular Biology. Humana Press Inc., Vol. 1400. p. 311-338 28 p. (Methods in Molecular Biology; vol. 1400).

Research output: Chapter in Book/Report/Conference proceedingChapter

Retroelements
Ribonucleoproteins
Long Interspersed Nucleotide Elements
HEK293 Cells
Life Cycle Stages

Genome-wide characterization of human L1 antisense promoter-driven transcripts

Criscione, S. W., Theodosakis, N., Micevic, G., Cornish, T. C., Burns, K., Neretti, N. & Rodić, N., Jun 14 2016, In : BMC Genomics. 17, 1, 463.

Research output: Contribution to journalArticle

Genome
Human Genome
Genes
YY1 Transcription Factor
Histone Code

Immunodetection of human LINE-1 expression in cultured cells and human tissues

Sharma, R., Rodić, N., Burns, K. & Taylor, M. S., 2016, Methods in Molecular Biology. Humana Press Inc., Vol. 1400. p. 261-280 20 p. (Methods in Molecular Biology; vol. 1400).

Research output: Chapter in Book/Report/Conference proceedingChapter

Cultured Cells
Proteins
Monoclonal Antibodies
Retroelements
Cytoplasm

Lack of TERT promoter mutations in human B-cell non-Hodgkin lymphoma

Lam, G., Xian, R., Li, Y., Burns, K. & Beemon, K. L., Nov 1 2016, In : Genes. 7, 11, 93.

Research output: Contribution to journalArticle

Telomerase
B-Cell Lymphoma
Non-Hodgkin's Lymphoma
Mutation
Neoplasms

Meeting report: The role of the mobilome in cancer

Ardeljan, D., Taylor, M. S., Burns, K., Boeke, J. D., Espey, M. G., Woodhouse, E. C. & Howcroft, T. K., Aug 1 2016, In : Cancer Research. 76, 15, p. 4316-4319 4 p.

Research output: Contribution to journalArticle

Long Interspersed Nucleotide Elements
Neoplasms
DNA Transposable Elements
Nucleic Acid Repetitive Sequences
Human Genome

Somatically Acquired LINE-1 Insertions in Normal Esophagus Undergo Clonal Expansion in Esophageal Squamous Cell Carcinoma

Doucet-O'Hare, T. T., Sharma, R., Rodić, N., Anders, R. A., Burns, K. & Kazazian, H., Sep 1 2016, In : Human Mutation. 37, 9, p. 942-954 13 p.

Research output: Contribution to journalArticle

Esophagus
Squamous Cell Carcinoma
Neoplasms
Open Reading Frames
Proteins

Somatic retrotransposition is infrequent in glioblastomas

Achanta, P., Steranka, J. P., Tang, Z., Rodić, N., Sharma, R., Yang, W. R., Ma, S., Grivainis, M., Huang, C. R. L., Schneider, A. M., Gallia, G. L., Riggins, G. J., Quinones-Hinojosa, A., Fenyö, D., Boeke, J. D. & Burns, K., Nov 11 2016, In : Mobile DNA. 7, 1, p. 1-9 9 p.

Research output: Contribution to journalArticle

Glioblastoma
Neoplasms
High-Throughput Nucleotide Sequencing
Central Nervous System Neoplasms
Retroelements

Tumor-infiltrating macrophages in post-transplant, relapsed classical Hodgkin lymphoma are donor-derived

Crane, G. M., Samols, M. A., Morsberger, L. A., Yonescu, R., Thiess, M. L., Batista, D., Ning, Y., Burns, K., Vuica-Ross, M., Borowitz, M. J., Gocke, C., Ambinder, R. F. & Duffield, A. S., Sep 1 2016, In : PLoS One. 11, 9, e0163559.

Research output: Contribution to journalArticle

Hodgkin disease
Transplants
Macrophages
Hodgkin Disease
Tumors
2015

Diagnostic utility of 5-hydroxymethylcytosine immunohistochemistry in melanocytic proliferations

Rodic, N., Zampella, J., Sharma, R., Burns, K. & Taube, J. M., Nov 1 2015, In : Journal of Cutaneous Pathology. 42, 11, p. 807-814 8 p.

Research output: Contribution to journalArticle

Nevus
Melanoma
Immunohistochemistry
Staining and Labeling
Nevi and Melanomas

LINE-1 expression and retrotransposition in Barrett's esophagus and esophageal carcinoma

Doucet-O'Hare, T. T., Rodić, N., Sharma, R., Darbari, I., Abril, G., Choi, J. A., Ahn, J. Y., Cheng, Y., Anders, R. A., Burns, K., Meltzer, S. & Kazazian, H., Sep 1 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 35, p. E4894-E4900

Research output: Contribution to journalArticle

Barrett Esophagus
Adenocarcinoma
Carcinoma
Esophagus
Open Reading Frames

Retrotransposon insertions in the clonal evolution of pancreatic ductal adenocarcinoma

Rodić, N., Steranka, J. P., Makohon-Moore, A., Moyer, A., Shen, P., Sharma, R., Kohutek, Z. A., Huang, C. R., Ahn, D., Mita, P., Taylor, M. S., Barker, N. J., Hruban, R. H., Iacobuzio-Donahue, C. A., Boeke, J. D. & Burns, K., Sep 8 2015, In : Nature Medicine. 21, 9, p. 1060-1064 5 p.

Research output: Contribution to journalArticle

Clonal Evolution
Retroelements
Adenocarcinoma
Long Interspersed Nucleotide Elements
Tissue
2014

Long interspersed element-1 protein expression is a hallmark of many human cancers

Rodić, N., Sharma, R., Sharma, R., Zampella, J., Dai, L., Taylor, M. S., Hruban, R. H., Iacobuzio-Donahue, C. A., Maitra, A., Torbenson, M. S., Goggins, M. S., Shih, I. M., Duffield, A. S., Montgomery, E. A., Gabrielson, E., Netto, G. J., Lotan, T., Demarzo, A. M., Westra, W., Binder, Z. A. & 6 others, Orr, B. A., Gallia, G. L., Eberhart, C. G., Boeke, J. D., Harris, C. R. & Burns, K., 2014, In : American Journal of Pathology. 184, 5, p. 1280-1286 7 p.

Research output: Contribution to journalArticle

Neoplasms
Proteins
Colonic Neoplasms
Open Reading Frames
Neoplasm Antigens

Primary effusion lymphoma presenting as a cutaneous intravascular lymphoma

Crane, G. M., Xian, R., Burns, K., Borowitz, M. J., Duffield, A. S. & Taube, J. M., Dec 1 2014, In : Journal of Cutaneous Pathology. 41, 12, p. 928-935 8 p.

Research output: Contribution to journalArticle

Primary Effusion Lymphoma
Lymphoma
Human Herpesvirus 8
Skin
Kaposi's Sarcoma

Visualization and probability-based scoring of structural variants within repetitive sequences

Halper-Stromberg, E., Steranka, J., Burns, K., Sabunciyan, S. & Irizarry, R. A., Jun 1 2014, In : Bioinformatics. 30, 11, p. 1514-1521 8 p.

Research output: Contribution to journalArticle

Nucleic Acid Repetitive Sequences
T-Cell Antigen Receptor
Scoring
Immunoglobulin
Genome
2013

Affinity proteomics reveals human host factors implicated in discrete stages of LINE-1 retrotransposition

Taylor, M. S., LaCava, J., Mita, P., Molloy, K. R., Huang, C. R. L., Li, D., Adney, E. M., Jiang, H., Burns, K., Chait, B. T., Rout, M. P., Boeke, J. D. & Dai, L., Nov 21 2013, In : Cell. 155, 5, p. 1034-1048 15 p.

Research output: Contribution to journalArticle

Proliferating Cell Nuclear Antigen
Proteomics
DNA
Clamping devices
Proteome

Fine mapping of V(D)J recombinase mediated rearrangements in human lymphoid malignancies

Halper-Stromberg, E., Steranka, J., Giraldo-Castillo, N., Fuller, T., Desiderio, S. & Burns, K., Aug 19 2013, In : BMC Genomics. 14, 1, 565.

Research output: Contribution to journalArticle

VDJ Recombinases
Genetic Recombination
V(D)J Recombination
Neoplasms
Chromosomes

Functional impact of the human mobilome

Babatz, T. D. & Burns, K., Jun 2013, In : Current Opinion in Genetics and Development. 23, 3, p. 264-270 7 p.

Research output: Contribution to journalArticle

Retroelements
Alu Elements
Interspersed Repetitive Sequences
Human Genome
Carcinogenesis
Xenotropic murine leukemia virus-related virus
Retroviridae
Light
Cell Line
Gammaretrovirus

Long Interspersed Element-1 (LINE-1): Passenger or Driver in Human Neoplasms?

Rodić, N. & Burns, K., 2013, In : PLoS Genetics. 9, 3, e1003402.

Research output: Contribution to journalArticle

Retroelements
retrotransposons
genome
neoplasms
gene

Software-automated counting of Ki-67 proliferation index correlates with pathologic grade and disease progression of follicular lymphomas

Samols, M. A., Smith, N. E., Gerber, J. M., Vuica-Ross, M., Gocke, C., Burns, K., Borowitz, M. J., Cornish, T. C. & Duffield, A. S., Oct 2013, In : American Journal of Clinical Pathology. 140, 4, p. 579-587 9 p.

Research output: Contribution to journalArticle

Follicular Lymphoma
Disease Progression
Software
Radiation
Drug Therapy
Bone Marrow
Tissue Donors
Anemia
Donor Selection
Lymphocytosis

TE-array-a high throughput tool to study transposon transcription

Gnanakkan, V. P., Jaffe, A., Dai, L., Fu, J., Wheelan, S., Levitsky, H. I., Boeke, J. D. & Burns, K., Dec 10 2013, In : BMC Genomics. 14, 1, 869.

Research output: Contribution to journalArticle

DNA Transposable Elements
RNA
Transcriptome
Chromatin
Genome

Translocation junctions in TCF3-PBX1 acute lymphoblastic leukemia/lymphoma cluster near transposable elements

Rodić, N., Zampella, J. G., Cornish, T. C., Wheelan, S. & Burns, K., 2013, In : Mobile DNA. 4, 1, 22.

Research output: Contribution to journalArticle

Transcription Factor 3
DNA Transposable Elements
Precursor Cell Lymphoblastic Leukemia-Lymphoma
Genetic Translocation
Neoplasms
2012

Active transposition in genomes

Huang, C. R. L., Burns, K. & Boeke, J. D., 2012, In : Annual Review of Genetics. 46, p. 651-675 25 p.

Research output: Contribution to journalArticle

Genome
Plant Genome
Technology
Genes

Blastic transformation of mantle cell lymphoma

Kasamon, Y. L. & Burns, K., Sep 20 2012, In : Blood. 120, 12, p. 2359 1 p.

Research output: Contribution to journalArticle

Mantle-Cell Lymphoma
Neoplasm Staging
Lymphocyte Activation

Clinical and pathologic features of secondary acute promyelocytic leukemia

Duffield, A. S., Aoki, J., Levis, M. J., Cowan, K., Gocke, C., Burns, K., Borowitz, M. J. & Vuica-Ross, M., Mar 2012, In : American Journal of Clinical Pathology. 137, 3, p. 395-402 8 p.

Research output: Contribution to journalArticle

Acute Promyelocytic Leukemia
Acute Myeloid Leukemia
Granulocyte Precursor Cells
Myelodysplastic Syndromes
Mutation Rate

Flow cytometric findings in hemophagocytic lymphohistiocytosis

McCall, C. M., Mudali, S., Arceci, R. J., Small, D., Fuller, S., Gocke, C., Vuica-Ross, M., Burns, K., Borowitz, M. J. & Duffield, A. S., May 2012, In : American Journal of Clinical Pathology. 137, 5, p. 786-794 9 p.

Research output: Contribution to journalArticle

Hemophagocytic Lymphohistiocytosis
Bone Marrow
Hematologic Neoplasms
Human Herpesvirus 4
Myelopoiesis

Genetics of mammalian reproduction: Modeling the end of the germline

Matzuk, M. M. & Burns, K., 2012, In : Annual Review of Physiology. 74, p. 503-528 26 p.

Research output: Contribution to journalArticle

Reproduction
Genetic Phenomena
Paracrine Communication
Genome
Gametogenesis

Human transposon tectonics

Burns, K. & Boeke, J. D., May 11 2012, In : Cell. 149, 4, p. 740-752 13 p.

Research output: Contribution to journalArticle

Tectonics
Retroelements
DNA
Inborn Genetic Diseases
Ointments
2011

Identification of replication competent murine gammaretroviruses in commonly used prostate cancer cell lines

Sfanos, K., Aloia, A. L., Hicks, J. L., Esopi, D. M., Steranka, J. P., Shao, W., Sanchez-Martinez, S., Yegnasubramanian, S., Burns, K., Rein, A. & Demarzo, A. M., 2011, In : PLoS One. 6, 6, e20874.

Research output: Contribution to journalArticle

Gammaretrovirus
prostatic neoplasms
Prostatic Neoplasms
Cells
cell lines
2010

Mobile interspersed repeats are major structural variants in the human genome

Huang, C. R. L., Schneider, A. M., Lu, Y., Niranjan, T., Shen, P., Robinson, M. A., Steranka, J. P., Valle, D., Civin, C. I., Wang, T., Wheelan, S., Ji, H. K., Boeke, J. D. & Burns, K., Jun 2010, In : Cell. 141, 7, p. 1171-1182 12 p.

Research output: Contribution to journalArticle

Human Genome
Genes
Polymorphism
Retroelements
Short Interspersed Nucleotide Elements