D. Shibata

D. Shibata, G. Stemmermann, L. Weiss, 1993, Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology.

Rearrangements of the BCL-6 Gene in Acquired Immunodeficiency Syndrome-Associated Non-Hodgkin's Lymphoma: Association With Diffuse Large-Cell Subtype

D. Shibata, G. Gaidano, B. H. Ye, 1994 .

Rearrangements of the BCL-6 gene in acquired immunodeficiency syndrome-associated non-Hodgkin's lymphoma: association with diffuse large-cell subtype.

D. Shibata, G. Gaidano, F. Lo Coco, 1994, Blood.

Letter to the editor: Epstein‐barr virus and T‐cell lymphoma

D. Shibata, R. Liang, 1991 .

Epstein-Barr virus infections and Hodgkin's disease: a study of fixed tissues using the polymerase chain reaction.

B. Nathwani, D. Shibata, M. Hansmann, 1991, Human pathology.

Description of an In Situ Hybridization Methodology for Detection of Epstein‐Barr Virus RNA in Paraffin‐Embedded Tissues, with a Survey of Normal and Neoplastic Tissues

D. Shibata, K. Chang, L. Weiss, 1992, Diagnostic molecular pathology : the American journal of surgical pathology, part B.

Epstein-Barr virus genotypes in AIDS-associated lymphomas are similar to those in endemic Burkitt's lymphomas.

D. Shibata, K. Bhatia, I. Magrath, 1992, Leukemia.

Epstein-Barr virus-associated non-Hodgkin's lymphoma in HIV-infected patients.

D. Shibata, A. Hernández, 1995, Leukemia & lymphoma.

Elevated antibody titers to Epstein‐Barr virus prior to the diagnosis of Epstein‐Barr‐virus‐associated gastric adenocarcinoma

D. Shibata, P. Levine, A. Hildesheim, 1995, International journal of cancer.

Detection of Human Papillomavirus in Formalin‐Fixed, Invasive Squamous Carcinomas Using the Polymerase Chain Reaction

D. Shibata, N. Arnheim, P. Fitzgibbons, 1989, The American journal of surgical pathology.

Loss of function of Trp53, but not Apc, leads to the development of esophageal adenocarcinoma in mice with jejunoesophageal reflux.

P. Laird, J. Peters, D. Shibata, 1999, The Journal of surgical research.

Ancestral inference in tumors: how much can we know?

D. Shibata, K. Siegmund, P. Marjoram, 2014, Journal of theoretical biology.

Microsatellite instability in sporadic endometrial carcinoma.

D. Shibata, J. Felix, B. Duggan, 1994, Journal of the National Cancer Institute.

Tumour susceptibility and spontaneous mutation in mice deficient in Mlh1, Pms1 and Pms2 DMA mismatch repair

Darryl Shibata, Allan Bradley, Tomas A. Prolla, 1998, Nature Genetics.

Diethylstilbestrol effects and lymphomagenesis in Mlh1‐deficient mice

P. Goodfellow, D. Shibata, D. Gutmann, 2005, International journal of cancer.

Intestinal stem cell division and genetic diversity. A computer and experimental analysis.

D. Shibata, R. Liskay, S. Baker, 1997, The American journal of pathology.

Reduction of pancreatic acinar cell tumor multiplicity in Dnmt1 hypomorphic mice.

P. Laird, Hui Shen, D. Shibata, 2011, Carcinogenesis.

Epstein-Barr virus in benign lymph node biopsies from individuals infected with the human immunodeficiency virus is associated with concurrent or subsequent development of non-Hodgkin's lymphoma.

B. Nathwani, D. Shibata, R. Brynes, 1991, Blood.

Is there a role for incomplete resection in the management of retroperitoneal liposarcomas?

D. Shibata, D. Shibata, D. Leung, 2001, Journal of the American College of Surgeons.

Inferring human stem cell behaviour from epigenetic drift

D. Shibata, Darryl Shibata, 2009, The Journal of pathology.

Early mutation bursts in colorectal tumors

C. Curtis, D. Shibata, K. Siegmund, 2017, PloS one.

Deep sequencing reveals lack of a clonal relationship between a metachronous classical hodgkin and diffuse large B-cell lymphoma.

D. Shibata, Haeyoun Kang, S. Ailawadhi, 2014, Clinical lymphoma, myeloma & leukemia.

Detection of human papillomavirus in normal and dysplastic tissue by the polymerase chain reaction.

K. Shah, D. Shibata, N. Arnheim, 1988, Laboratory investigation; a journal of technical methods and pathology.

Epidemiological and biological study of acquired immunodeficiency syndrome-related lymphoma in the County of Los Angeles: preliminary results.

B. Nathwani, D. Shibata, P. Levine, 1992, Cancer research.

Incidence of Epstein-Barr virus bcl-2 expression and chromosomal translocation t(14;18) in large cell lymphoma associated with paragranuloma (lymphocyte-predominant Hodgkin's disease).

B. Nathwani, D. Shibata, M. Hansmann, 1994, Human pathology.

Telomerase activity in normal and neoplastic breast.

D. Shibata, M. Press, X. Yang, 1997, Clinical cancer research : an official journal of the American Association for Cancer Research.

Telomerase activity is commonly detected in hereditary nonpolyposis colorectal cancers.

L. Aaltonen, D. Shibata, R. Salovaara, 1996, The American journal of pathology.

Lymphoepithelioma-like carcinoma and its relationship to Epstein-Barr virus.

M. Gaffey, D. Shibata, L. Weiss, 1991, American journal of clinical pathology.

Early mutational activation of the c-Ki-ras oncogene in endometrial carcinoma.

D. Shibata, J. Felix, B. Duggan, 1994, Cancer research.

Lineage tracing in human tissues

D. Shibata, T. Graham, N. Wright, 2022, The Journal of pathology.

Review Molecular Tumor Clocks and Dynamic Phenotype

D. Shibata, 2007 .

Effects of mutation and growth rates on patterns of microsatellite instability.

L. Aaltonen, S. Srivastava, D. Shibata, 1996, The American journal of pathology.

Detection and Localization of Epstein-Barr Viral Genomes in Angioimmunoblastic Lymphadenopathy and Angioimmunoblastic Lymph a den o pa t h yli ke Lymphoma

Elaine, D. Shibata, L. Medeiros, 2003 .

Detection and Localization of Epstein-Barr Viral Genomes in Angioimmunoblastic Lymphadenopathy and Angioimmunoblastic

Elaine, D. Shibata, L. Medeiros, 2003 .

Detection and localization of Epstein-Barr viral genomes in angioimmunoblastic lymphadenopathy and angioimmunoblastic lymphadenopathy-like lymphoma.

E. Jaffe, D. Shibata, L. Medeiros, 1992, Blood.

[Bcl-2 in potentials precursors of nodular paragranuloma and its dedifferentiated variant (large cell B-lymphoma)].

D. Shibata, M. Hansmann, F. Pezzella, 1992, Verhandlungen der Deutschen Gesellschaft fur Pathologie.

Nodal benign and malignant monocytoid B cells with and without follicular lymphomas: a comparative study of follicular colonization, light chain restriction, bcl-2, and t(14;18) in 39 cases.

B. Nathwani, D. Shibata, P. Nichols, 1995, Human pathology.

Malignant peripheral nerve sheath tumor arising in an adrenal ganglioneuroma in an adult male homosexual

D. Shibata, R. Radin, P. Chandrasoma, 1986, Cancer.

Detection of specific t(14;18) chromosomal translocations in fixed tissues.

B. Nathwani, D. Shibata, R. Brynes, 1990, Human pathology.

Detection of human T-cell leukemia virus type I proviral sequences from fixed tissues of seropositive patients.

D. Shibata, N. Sasaki, M. Tokunaga, 1991, American journal of clinical pathology.

The gene expression profiles of induced pluripotent stem cells from individuals with childhood cerebral adrenoleukodystrophy are consistent with proposed mechanisms of pathogenesis

J. Hacia, D. Shibata, Wange Lu, 2012, Stem Cell Research & Therapy.

Patterns of p53 mutations in squamous cell carcinoma of the lung. Acquisition at a relatively early age.

D. Shibata, L. Weiss, J. Tsao, 1994, The American journal of pathology.

PCR diagnostics of herpes-virus-group infections.

D. Shibata, 1992, Annals of medicine.

Detection of Herpes Viruses by PCR-Diagnostic Aspects

D. Shibata, 1991 .

Detection of Viral Sequences in Formalin Fixed, Paraffin Embedded Tissues from HIV-1 Infected Patients Using the PCR

D. Shibata, 1991 .

Anatomical distribution of HTLV‐I proviral sequence in an autopsy case of HTLV‐I associated myelopathy: A polymerase chain reaction study

D. Shibata, M. Goto, E. Sato, 1994, Pathology international.

Human T-cell lymphotropic virus type I (HTLV-I)-associated adult T-cell leukemia-lymphoma in a patient infected with human immunodeficiency virus type 1 (HIV-1).

D. Shibata, R. Brynes, T. Spira, 1989, Annals of internal medicine.

Human immunodeficiency viral DNA is readily found in lymph node biopsies from seropositive individuals. Analysis of fixed tissue using the polymerase chain reaction.

B. Nathwani, D. Shibata, N. Arnheim, 1989, The American journal of pathology.

Human papillomavirus investigation of patients with cervical intraepithelial neoplasia 3, some of whom progressed to invasive cancer.

K. Shah, D. Shibata, T. Kessis, 1996, International journal of gynecological pathology : official journal of the International Society of Gynecological Pathologists.

Genetic complementation by cloned bacteriophage T4 late genes

L. M. Albright, E. Geiduschek, D. Shibata, 1981, Journal of virology.

A pattern of accumulation of a somatic deletion of mitochondrial DNA in aging human tissues.

D. Shibata, N. Arnheim, G. Cortopassi, 1992, Proceedings of the National Academy of Sciences of the United States of America.

Mutational signatures in colon cancer

D. Shibata, K. Siegmund, P. Marjoram, 2019, BMC Research Notes.

Localization of a susceptibility locus for Peutz-Jeghers syndrome to 19p using comparative genomic hybridization and targeted linkage analysis

Darryl Shibata, Ian Tomlinson, Sakari Knuutila, 1997, Nature Genetics.

Detection of human papilloma virus in paraffin-embedded tissue using the polymerase chain reaction

D. Shibata, N. Arnheim, W. J. Martin, 1988, The Journal of experimental medicine.

Detection of cytomegalovirus DNA in peripheral blood of patients infected with human immunodeficiency virus.

W. J. Martin, D. Shibata, N. Arnheim, 1988, The Journal of infectious diseases.

Association of Epstein-Barr virus with undifferentiated gastric carcinomas with intense lymphoid infiltration. Lymphoepithelioma-like carcinoma.

D. Shibata, L. Weiss, E. Sato, 1991, The American journal of pathology.

Extraction of DNA from paraffin-embedded tissue for analysis by polymerase chain reaction: new tricks from an old friend.

D. Shibata, 1994, Human pathology.

43 – DETECTION OF HUMAN CYTOMEGALOVIRUS

D. Shibata, 1990 .

Analysis of DNA sequences in forty-year-old paraffin-embedded thin-tissue sections: a bridge between molecular biology and classical histology.

D. Shibata, N. Arnheim, W. J. Martin, 1988, Cancer research.

Genomic instability in repeated sequences is an early somatic event in colorectal tumorigenesis that persists after transformation

D. Shibata, M. Perucho, M. Peinado, 1994, Nature Genetics.

Cytomegalovirus infection in the acquired immunodeficiency syndrome. Clinical and autopsy findings.

D. Shibata, E. Klatt, 1988, Archives of pathology & laboratory medicine.

Unregulated smooth-muscle myosin in human intestinal neoplasia

Darryl Shibata, Charis Eng, Jukka-Pekka Mecklin, 2008, Proceedings of the National Academy of Sciences.

Epstein-Barr virus-associated gastric adenocarcinoma.

D. Shibata, L. Weiss, D Shibata, 1992, The American journal of pathology.

Fixed human tissues: a resource for the identification of individuals.

D. Shibata, T. Noguchi, M. Kurosu, 1991, Journal of forensic sciences.

Mutational activation of the c-K-ras gene in human pancreatic carcinoma.

G. Capellá, D. Shibata, M. Perucho, 1990, Bailliere's clinical gastroenterology.

Detection of human papillomavirus DNA in fine‐needle aspirations of metastatic squamous‐cell carcinoma of the uterine cervix using the polymerase chain reaction

D. Shibata, N. Arnheim, S. Martin, 1989, Diagnostic cytopathology.

HumanImmunodeficiency Viral DNAisReadily FoundinLymphNodeBiopsies from Seropositive Individuals

B. Nathwani, D. Shibata, S. Kwok, 1989 .

The co-evolution of the genome and epigenome in colorectal cancer

George D. Cresswell, L. Magnani, I. Spiteri, 2021, bioRxiv.

Visualizing Human Colorectal Cancer Intratumor Heterogeneity with Phylogeography

D. Shibata, 2020, iScience.

Minimal barriers to invasion during human colorectal tumor growth

Lorraine M. King, C. Maley, E. Hwang, 2019, Nature Communications.

Spatial mutation patterns as markers of early colorectal tumor cell mobility

D. Shibata, K. Siegmund, B. Min, 2018, Proceedings of the National Academy of Sciences.

Single-molecule genomic data delineate patient-specific tumor profiles and cancer stem cell organization.

Andrea Sottoriva, Darryl Shibata, Simon Tavaré, 2013, Cancer research.

Different Phenotypic Consequences of Simultaneous Versus Stepwise Apc Loss

D. Shibata, Jared M. Fischer, R. Liskay, 2011, Oncogene.

Pretumor progression: clonal evolution of human stem cell populations.

S. Tavaré, D. Shibata, P. Calabrese, 2004, The American journal of pathology.

Methylation reveals a niche: stem cell succession in human colon crypts

Kyoung-Mee Kim, Darryl Shibata, D. Shibata, 2002, Oncogene.

PolyA deletions in hereditary nonpolyposis colorectal cancer: mutations before a gatekeeper.

Kyoung-Mee Kim, Darryl Shibata, Jukka-Pekka Mecklin, 2002, The American journal of pathology.

Colorectal adenoma and cancer divergence. Evidence of multilineage progression.

S. Tavaré, L. Aaltonen, D. Shibata, 1999, The American journal of pathology.

DNA Methyltransferase Deficiency Modifies Cancer Susceptibility in Mice Lacking DNA Mismatch Repair

P. Laird, D. Shibata, T. Long, 2002, Molecular and Cellular Biology.

Smad3 deficiency promotes tumorigenesis in the distal colon of ApcMin/+ mice.

P. Laird, D. Shibata, J. Bading, 2006, Cancer research.

Mutations in the coding region of c-MYC in AIDS-associated and other aggressive lymphomas.

M. Raffeld, D. Shibata, T. Otsuki, 1994, Cancer research.

Inferring clonal expansion and cancer stem cell dynamics from DNA methylation patterns in colorectal cancers

Paul Marjoram, Darryl Shibata, Simon Tavaré, 2009, Proceedings of the National Academy of Sciences.

Older individuals appear to acquire mitotically older colorectal cancers

S. Tavaré, D. Shibata, K. Siegmund, 2009, The Journal of pathology.

Investigating stem cells in human colon by using methylation patterns

S. Tavaré, D. Shibata, Y. Yatabe, 2001, Proceedings of the National Academy of Sciences of the United States of America.

Many private mutations originate from the first few divisions of a human colorectal adenoma

C. Curtis, D. Shibata, K. Siegmund, 2015, The Journal of pathology.

Phenotypic plasticity and genetic control in colorectal cancer evolution

George D. Cresswell, L. Magnani, I. Spiteri, 2021, bioRxiv.

Tumorigenesis as the Paradigm of Quasi-neutral Molecular Evolution.

D. Shibata, Chung-I Wu, Xu Shen, 2019, Molecular biology and evolution.

Quasi-neutral molecular evolution — When positive and negative selection cancel out

D. Shibata, Chung-I Wu, Qingjian Chen, 2018, bioRxiv.

Heterogeneity and randomness of DNA methylation patterns in human embryonic stem cells.

D. Shibata, C. Hsieh, Albert G. Tsai, 2012, DNA and cell biology.

Identification and functional relevance of de novo DNA methylation in cancerous B‐cell populations

W. C. Chan, T. Greiner, D. Weisenburger, 2010, Journal of cellular biochemistry.

Reconstruction of Contemporary Human Stem Cell Dynamics with Oscillatory Molecular Clocks

Chris P. Barnes, D. Weisenberger, D. Shibata, 2021, bioRxiv.

Occult progression by Apc-deficient intestinal crypts as a target for chemoprevention.

H. Clevers, D. Shibata, A. Schepers, 2014, Carcinogenesis.

Detection of c-K-ras mutations in fine needle aspirates from human pancreatic adenocarcinomas.

D. Shibata, N. Arnheim, S. Martin, 1990, Cancer research.

BCL2 translocation frequency rises with age in humans.

D. Shibata, Y. Liu, G. Cortopassi, 1994, Proceedings of the National Academy of Sciences of the United States of America.

Selective ultraviolet radiation fractionation and polymerase chain reaction analysis of genetic alterations.

D. Shibata, 1993, The American journal of pathology.

Numbers of mutations to different types of colorectal cancer

Darryl Shibata, Simon Tavaré, Jukka-Pekka Mecklin, 2005, BMC Cancer.

Colorectal pretumor progression before and after loss of DNA mismatch repair.

S. Tavaré, L. Aaltonen, D. Shibata, 2004, The American journal of pathology.

Enhanced stem cell survival in familial adenomatous polyposis.

S. Tavaré, D. Shibata, Kyoung-Mee Kim, 2004, The American journal of pathology.

Fluctuating methylation clocks for cell lineage tracing at high temporal resolution in human tissues

Chris P. Barnes, D. Weisenberger, D. Shibata, 2022, Nature biotechnology.

Stabilising selection causes grossly altered but stable karyotypes in metastatic colorectal cancer

Marc J. Williams, George D. Cresswell, P. Martinez, 2020, bioRxiv.

The DCC protein and prognosis in colorectal cancer.

M. Loda, P. Lavin, D. Shibata, 1996, The New England journal of medicine.

Homeostasis limits keratinocyte evolution

D. Shibata, S. Leedham, R. Schenck, 2019, bioRxiv.

Extensive somatic microsatellite mutations in normal human tissue.

L. Aaltonen, D. Shibata, M. Pöyhönen, 2001, Cancer research.

Talking tumours: histories from sequences

D. Shibata, 2001, Annals of medicine.

Somatic microsatellite mutations as molecular tumor clocks

L. Aaltonen, D. Shibata, W. Navidi, 1996, Nature Medicine.

The Stem Cell Population of the Human Colon Crypt: Analysis via Methylation Patterns

Simon Tavaré, Pierre Nicolas, Kyoung-Mee Kim, 2007, PLoS Comput. Biol..

Recombination between feline leukemia virus subgroup B or C and endogenous env elements alters the in vitro biological activities of the viruses

D. Shibata, A. Ghosh, D. Kumar, 1991, Journal of virology.

Role of zidovudine antiretroviral therapy in the pathogenesis of acquired immunodeficiency syndrome-related lymphoma.

B. Nathwani, L. Bernstein, D. Shibata, 1995, Blood.

Genetic predisposition and somatic diversification in tumor development and progression.

L. Aaltonen, D. Shibata, Darryl Shibata, 2001, Advances in cancer research.

Global and gene-specific epigenetic patterns in human bladder cancer genomes are relatively stable in vivo and in vitro over time.

P. Laird, D. Shibata, G. Liang, 2001, Cancer research.

Stem cells as common ancestors in a colorectal cancer ancestral tree

D. Shibata, 2008, Current opinion in gastroenterology.

Genetic reconstruction of individual colorectal tumor histories.

S. Tavaré, L. Aaltonen, D. Shibata, 2000, Proceedings of the National Academy of Sciences of the United States of America.

Using DNA Methylation Patterns to Infer Tumor Ancestry

D. Shibata, K. Siegmund, P. Marjoram, 2010, PloS one.

Diet, cancer and aging in DNA mismatch repair deficient mice.

P. Laird, D. Shibata, K. Siegmund, 2002, Carcinogenesis.

Low-level microsatellite instability in most colorectal carcinomas.

J. Herman, L. Aaltonen, M. Esteller, 2002, Cancer research.

Stepwise deletions of polyA sequences in mismatch repair-deficient colorectal cancers.

D. Shibata, C. Blake, J. Tsao, 2001, The American journal of pathology.

Molecular tumor clocks and dynamic phenotype.

D. Shibata, 1997, The American journal of pathology.

Epigenetic Heterogeneity in Human Colorectal Tumors Reveals Preferential Conservation And Evidence of Immune Surveillance

D. Shibata, K. Siegmund, M. Ryser, 2018, Scientific Reports.

The fuzzy math of solid tumor stem cells: a perspective.

S. Kern, D. Shibata, 2007, Cancer research.

Bladder cancer genotype stability during clinical progression

Peter A. Jones, D. Shibata, Y. Yatabe, 2000, Genes, chromosomes & cancer.

Tracing cell fates in human colorectal tumors from somatic microsatellite mutations: evidence of adenomas with stem cell architecture.

L. Aaltonen, D. Shibata, J. Mecklin, 1998, The American journal of pathology.

Genetic heterogeneity of the c-K-ras locus in colorectal adenomas but not in adenocarcinomas.

G. Capellá, D. Shibata, M. Perucho, 1993, Journal of the National Cancer Institute.

Deficiencies in mouse Myh and Ogg1 result in tumor predisposition and G to T mutations in codon 12 of the K-ras oncogene in lung tumors.

D. Barnes, D. Shibata, Jeffrey H. Miller, 2004, Cancer research.

DNA mismatch repair in mammals: role in disease and meiosis.

D. Shibata, N. Arnheim, 1997, Current opinion in genetics & development.

Induced pluripotent stem cell models of Zellweger spectrum disorder show impaired peroxisome assembly and cell type-specific lipid abnormalities

A. Moser, J. Hacia, D. Shibata, 2015, Stem Cell Research & Therapy.

The gene expression profiles of induced pluripotent stem cells from individuals with childhood cerebral adrenoleukodystrophy are consistent with proposed mechanisms of pathogenesis

J. Hacia, D. Shibata, Wing Yan Yik, 2012, Stem Cell Research & Therapy.

Pattern recognition and arrays: the times are a-changing.

D. Shibata, 1999, The American journal of pathology.

Direct Measurements of Human Colon Crypt Stem Cell Niche Genetic Fidelity: The Role of Chance in Non-Darwinian Mutation Selection

D. Shibata, Haeyoun Kang, 2013, Front. Oncol..

Concordance for Hodgkin's disease in identical twins suggesting genetic susceptibility to the young-adult form of the disease.

B. Nathwani, E. Rappaport, T. Mack, 1995, The New England journal of medicine.

HistoMosaic Detecting KRAS G12V Mutation Across Colorectal Cancer Tissue Slices through in Situ PCR.

D. Shibata, E. Kartalov, C. Raub, 2016, Analytical chemistry.

The embryonic lethality in DNA ligase IV-deficient mice is rescued by deletion of Ku: implications for unifying the heterogeneous phenotypes of NHEJ mutants.

K. Schwarz, M. Lieber, D. Shibata, 2002, DNA repair.

Lack of increases in methylation at three CpG-rich genomic loci in non-mitotic adult tissues during aging

S. Tavaré, G. Kanel, D. Shibata, 2007, BMC Medical Genetics.

Somatic mitochondrial mutation in gastric cancer.

D. Shibata, L. Burgart, L J Burgart, 1995, The American journal of pathology.

p53 mutations and microsatellite instability in sporadic gastric cancer: when guardians fail.

D. Shibata, L. Burgart, S. Alberts, 1994, Cancer research.

Cancer cell evolution through the ages

C. Maley, D. Shibata, 2019, Science.

Derivation of induced pluripotent stem cells from orangutan skin fibroblasts

J. Hacia, O. Ryder, D. Shibata, 2015, BMC Research Notes.

Hormone therapy, DNA methylation and colon cancer.

P. Laird, D. Shibata, A. Wu, 2010, Carcinogenesis.

Single cell lineage tracing reveals a role for TgfβR2 in intestinal stem cell dynamics and differentiation

Nina M. Muñoz, D. Shibata, W. Grady, 2016, Proceedings of the National Academy of Sciences.

Stem Cells As Common Ancestors

D. Shibata, 2004 .

Mismatch repair deficiency and CpG island hypermethylation in sporadic colon adenocarcinomas.

P. Laird, D. Shibata, A. Wu, 2001, Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology.

Modeling DNA Methylation in a Population of Cancer Cells

Kimberly D. Siegmund, Paul Marjoram, Darryl Shibata, 2008, Statistical applications in genetics and molecular biology.

Measuring Rather Than Imagining Somatic Cell Selection and Clonal Evolution

D. Shibata, 2016 .

Molecular tumor clocks to study the evolution of drug resistance.

Darryl Shibata, D. Shibata, 2011, Molecular pharmaceutics.

Mutation and epigenetic molecular clocks in cancer.

D. Shibata, 2011, Carcinogenesis.

Many colorectal cancers are “flat” clonal expansions

S. Tavaré, D. Shibata, K. Siegmund, 2009, Cell cycle.

Inferring relative numbers of human leucocyte genome replications

Kimberly D. Siegmund, Darryl Shibata, Simon Tavaré, 2008, British journal of haematology.

Inferring relative numbers of human leucocyte genome

D. Shibata, K. Siegmund, Q. Hao, 2008 .

Counting Divisions in a Human Somatic Cell Tree: How, What and Why

Darryl Shibata, Simon Tavaré, S. Tavaré, 2006, Cell cycle.

Human hair genealogies and stem cell latency

Darryl Shibata, Simon Tavaré, S. Tavaré, 2006, BMC Biology.

BMC Medicine BioMed Central

Darryl Shibata, Simon Tavaré, Kimberly D Siegmund, 2005 .

Evolutionary Stem Cell Poker and Cancer Risks: the Paradox of the Large and Small Intestines

D. Shibata, 2018, Current Pathobiology Reports.

Epigenetic Subgroups of Esophageal and Gastric Adenocarcinoma with Differential GATA5 DNA Methylation Associated with Clinical and Lifestyle Factors

P. Laird, D. Weisenberger, L. Bernstein, 2011, PloS one.

High DNA Methylation Pattern Intratumoral Diversity Implies Weak Selection in Many Human Colorectal Cancers

S. Tavaré, D. Shibata, K. Siegmund, 2011, PloS one.

Stability of colon stem cell methylation after neo-adjuvant therapy in a patient with attenuated familial adenomatous polyposis

R. Beart, D. Shibata, Jung Yeon Kim, 2005, BMC gastroenterology.

Generation and Characterization of Endonuclease G Null Mice

M. Lieber, D. Shibata, Kefei Yu, 2005, Molecular and Cellular Biology.

Deep learned tissue “fingerprints” classify breast cancers by ER/PR/Her2 status from H&E images

D. Ruderman, D. Shibata, R. Rawat, 2020, Scientific Reports.

Multilineage hematopoietic recovery with concomitant antitumor effects using low dose Interleukin-12 in myelosuppressed tumor-bearing mice

D. Shibata, D. Douer, Joseph D. Miller, 2008, Journal of Translational Medicine.

Epstein-Barr virus (EBV) nuclear antigen (EBNA)-4 mutation in EBV-associated malignancies in three different populations.

D. Shibata, P. Chu, K. Hayashi, 1999, The American journal of pathology.

Recombination between feline leukemia virus subgroup B or C and endogenous env elements alters the in vitro biological activities of the viruses

D. Shibata, A. Ghosh, D. Kumar, 1992, Journal of virology.

Characterization of the topography of Epstein-Barr virus infection in human immunodeficiency virus-associated lymphoid tissues.

D. Shibata, D. Arber, L. Weiss, 1992, Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc.

Gattaca: Base pair resolution mutation tracking for somatic evolution studies using agent-based models

D. Shibata, S. Leedham, R. Schenck, 2021, bioRxiv.

A Bayesian hierarchical model to estimate DNA methylation conservation in colorectal tumors

Darryl Shibata, Andrew S. Allen, Kevin A. Murgas, 2021, Bioinform..

Assessment of the evolutionary consequence of putative driver mutations in colorectal cancer with spatial multiomic data

Chris P. Barnes, George D. Cresswell, L. Magnani, 2021, bioRxiv.

Navigating the path to distant metastasis

D. Shibata, T. Graham, 2020, Nature Genetics.

At least two well-spaced samples are needed to genotype a solid tumor

D. Shibata, K. Siegmund, 2016, BMC Cancer.

Mutational signatures in colon cancer

D. Shibata, K. Siegmund, P. Marjoram, 2019, BMC Research Notes.

Dietary heterocyclic amines and microsatellite instability in colon adenocarcinomas.

D. Shibata, A. Wu, M. Yu, 2001, Carcinogenesis.

Loss of DNA mismatch repair: life in the fast lane?

D. Shibata, 1996, Gastroenterology.

Water intake and bladder cancer risk in Los Angeles County

S. Groshen, D. Conti, D. Shibata, 2008, International journal of cancer.

Can oncology recapitulate paleontology? Lessons from species extinctions

C. Swanton, C. Maley, P. Turner, 2015, Nature Reviews Clinical Oncology.

Microsatellite instability is rare in B-cell non-Hodgkin's lymphomas.

D. Shibata, G. Gaidano, D. Louie, 1997, Blood.

Follicular Small Lymphocytic Lymphoma

D. Shibata, K. Chang, D. Arber, 1994, The American journal of surgical pathology.

Functional human genes typically exhibit epigenetic conservation

D. Shibata, K. Siegmund, P. Marjoram, 2021, bioRxiv.

Epigenetic Conservation Is a Beacon of Function: An Analysis Using Methcon5 Software for Studying Gene Methylation

D. Shibata, K. Siegmund, P. Marjoram, 2020, JCO clinical cancer informatics.

IL-12 facilitates both the recovery of endogenous hematopoiesis and the engraftment of stem cells after ionizing radiation.

D. Shibata, K. Burke, X. Wang, 2007, Experimental hematology.

Biologic aspects of AIDS‐related lymphoma

D. Shibata, 1994, Current opinion in oncology.

Epstein-Barr virus-associated nuclear antigen-1 carboxy-terminal gene sequences in Japanese and American patients with gastric carcinoma.

D. Shibata, K. Hayashi, K. Chang, 1998, Laboratory investigation; a journal of technical methods and pathology.

Induced pluripotent stem cell models of Zellweger spectrum disorder show impaired peroxisome assembly and cell type-specific lipid abnormalities

A. Moser, J. Hacia, D. Shibata, 2015, Stem Cell Research & Therapy.

Molecular tumour clocks.

D. Shibata, 1997, Annals of medicine.

Identification of a mislabeled fixed specimen by DNA analysis.

D. Shibata, Russell Higuchi, T. Namiki, 1990, The American journal of surgical pathology.

Ancestral trees for modeling stem cell lineages genetically rather than functionally: understanding mutation accumulation and distinguishing the restrictive cancer stem cell propagation theory and the unrestricted cell propagation theory of human tumorigenesis.

S. Kern, D. Shibata, 2008, Breast Disease.

Postmortem enzyme immunoassay for human immunodeficiency virus.

D. Shibata, E. Klatt, S. Strigle, 1989, Archives of Pathology & Laboratory Medicine.

Analysis of human immunodeficiency virus and cytomegalovirus infection by polymerase chain reaction in the acquired immunodeficiency syndrome. An autopsy study.

D. Shibata, Klatt Ec, 1989, Archives of pathology & laboratory medicine.

Cytoreductive Surgery and Hyperthermic Intraperitoneal Chemotherapy in the Management of Peritoneal Surface Malignancies of Colonic Origin: A Consensus Statement

L. Oñate-Ocaña, N. Petrelli, D. Shibata, 2011, Annals of Surgical Oncology.

Global gene expression profiling in Barrett's esophagus and esophageal cancer: a comparative analysis using cDNA microarrays

D. Shibata, Suna Wang, F. Sato, 2002, Oncogene.

Epigenetic Heterogeneity in Human Colorectal Tumors Reveals Preferential Conservation And Evidence of Immune Surveillance

D. Shibata, K. Siegmund, M. Ryser, 2018, Scientific Reports.

Mistakes make history: visualizing intestinal tectonics.

D. Shibata, 2008, Gastroenterology.

Epstein-Barr virus and gastric carcinoma.

D. Shibata, 1996, Japanese journal of cancer research : Gann.

At least two well-spaced samples are needed to genotype a solid tumor

D. Shibata, K. Siegmund, 2016, BMC Cancer.

A stem cell niche dominance theorem

Olaf Wolkenhauer, Darryl Shibata, Mihajlo D. Mesarovic, 2010, BMC Systems Biology.

Mutation and epigenetic molecular clocks in cancer.

D. Shibata, 2011, Carcinogenesis.

Hormone therapy, DNA methylation and colon cancer.

P. Laird, D. Shibata, A. Wu, 2010, Carcinogenesis.

Human hair genealogies and stem cell latency

S. Tavaré, D. Shibata, Jung Yeon Kim, 2006, BMC Biology.

MethyLight: a high-throughput assay to measure DNA methylation.

P. Laird, D. Shibata, L. Saltz, 2000, Nucleic acids research.

Heterozygous DNA mismatch repair gene PMS2-knockout mice are susceptible to intestinal tumor induction with N-methyl-N-nitrosourea.

D. Shibata, S. Gerson, X. Qin, 2000, Carcinogenesis.

Systems biologists seek fuller integration of systems biology approaches in new cancer research programs.

D. Fell, C. Auffray, J. Tyson, 2010, Cancer research.