Keita Iida

Protein Research Foundation

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Mariko Okada

Protein Research Foundation

Yoshitaka Kimura

Tohoku University

Nobuo Yaegashi

Tohoku University

Jumpei Kondo

Osaka University

Yupeng Dong

Tohoku Medical and Pharmaceutical University

Naoaki Sato

Kobari General Hospital

Masaharu Nagayama

Hokkaido University

Jun Yasuda

Miyagi Prefectural Hospital Organization

Kazuo Nagasawa

Tokyo University of Agriculture and Technology

Rika Sugibayashi

National Center For Child Health and Development

Cooperative Institutions

Tohoku University

183

Tohoku Medical Megabank Organization

168

Advanced Science Research Center

157

Japan Atomic Energy Agency

152

The University of Tokyo

Osaka University

Kyoto University

Tohoku University Hospital

Iwate Medical University

National Institutes for Quantum and Radiological Science and Technology

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Single-cell and spatial transcriptome datasets

Figshare (2022)

Keita Iida

Single-cell and spatial transcriptome databases as well as the codes for analysing these data are stored. We refer the following papers and repositories: * Stewart et al., Nat. Cancer 1, 2020 * Reyes et al., Nat. Med. 26, 2020 * Moncada et al., Nat. Biotechnol. 38, 2020 * 10x Genomics repository

10.6084/m9.figshare.19200254.v3

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Novel candidates of pathogenic variants of the BRCA1 and BRCA2 genes from a dataset of 3,552 Japanese whole genomes (3.5KJPNv2)

PLoS ONE (2021)

Hideki Tokunaga Keita Iida Atsushi Hozawa Soichi Ogishima Yoh Watanabe

Identification of the population frequencies of definitely pathogenic germline variants in two major hereditary breast and ovarian cancer syndrome (HBOC) genes, BRCA1/2 , is essential to estimate the number of HBOC patients. In addition, the identification of moderately penetrant HBOC gene variants that contribute to increasing the risk of breast and ovarian cancers in a population is critical to establish personalized health care. A prospective cohort subjected to genome analysis can provide both sets of information. Computational scoring and prospective cohort studies may help to identify such likely pathogenic variants in the general population. We annotated the variants in the BRCA1 and BRCA2 genes from a dataset of 3,552 whole-genome sequences obtained from members of a prospective cohorts with genome data in the Tohoku Medical Megabank Project (TMM) with InterVar software. Computational impact scores (CADD_phred and Eigen_raw) and minor allele frequencies (MAFs) of pathogenic (P) and likely pathogenic (LP) variants in ClinVar were used for filtration criteria. Familial predispositions to cancers among the 35,000 TMM genome cohort participants were analyzed to verify the identified pathogenicity. Seven potentially pathogenic variants were newly identified. The sisters of carriers of these moderately deleterious variants and definite P and LP variants among members of the TMM prospective cohort showed a statistically significant preponderance for cancer onset, from the self-reported cancer history. Filtering by computational scoring and MAF is useful to identify potentially pathogenic variants in BRCA genes in the Japanese population. These results should help to follow up the carriers of variants of uncertain significance in the HBOC genes in the longitudinal prospective cohort study.

Minor allele frequency

1000 Genomes Project

Human genetics

10.1371/journal.pone.0236907

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Citations (9)

Identifying Key Regulatory Genes in Drug Resistance Acquisition: Modeling Pseudotime Trajectories of Breast Cancer Single-Cell Transcriptome

Cancers (2024)

Keita Iida Mariko Okada

Single-cell RNA-sequencing (scRNA-seq) technology has provided significant insights into cancer drug resistance at the single-cell level. However, understanding dynamic cell transitions at the molecular systems level remains limited, requiring a systems biology approach. We present an approach that combines mathematical modeling with a pseudotime analysis using time-series scRNA-seq data obtained from the breast cancer cell line MCF-7 treated with tamoxifen. Our single-cell analysis identified five distinct subpopulations, including tamoxifen-sensitive and -resistant groups. Using a single-gene mathematical model, we discovered approximately 560–680 genes out of 6000 exhibiting multistable expression states in each subpopulation, including key estrogen-receptor-positive breast cancer cell survival genes, such as RPS6KB1. A bifurcation analysis elucidated their regulatory mechanisms, and we mapped these genes into a molecular network associated with cell survival and metastasis-related pathways. Our modeling approach comprehensively identifies key regulatory genes for drug resistance acquisition, enhancing our understanding of potential drug targets in breast cancer.

Gene regulatory network

10.3390/cancers16101884

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Citations (1)

Positive and negative feedback regulation of the TGF-β1 explains two equilibrium states in skin aging

iScience (2024)

Masatoshi Haga Keita Iida Mariko Okada

Homeostasis

Skin Aging

Human skin

Thrombospondin 1

10.1016/j.isci.2024.109708

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Citations (2)

Epitaxial NdFeAs(O,F) films by molecular beam epitaxy: Influence of film thickness and surface morphology on superconducting properties

Sandra Kauffmann‐Weiss Keita Iida Takuichi Ohmura Takuya Matsumoto T. Hatano

Morphology

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Extremely Slow Fatigue Crack Propagation of High Strength steel in Very High Cycle Regime

The Proceedings of Conference of Kyushu Branch (2021)

Keita Iida Yoshihito KUROSHIMA

10.1299/jsmekyushu.2021.74.d44

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ISP-9-7 Phosphorylation of ATF2 at Thr71 in the fetal brain response to global Ischemic Reperfusion is triggered by vaginal LPS administration(Group 9 Perinatology 1,IS Poster,International Session)

日本産科婦人科學會雜誌 (2014)

Yupeng Dong Takuya Ito Rika Sugibayashi Keita Iida Naoaki Sato

Source

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Theoretical study on the translation and rotation of an elliptic camphor particle

Physica D Nonlinear Phenomena (2014)

Keita Iida Hiroyuki Kitahata Masaharu Nagayama

Camphor

10.1016/j.physd.2014.01.005

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Citations (33)

Distinct but interchangeable subpopulations of colorectal cancer cells with different growth fates and drug sensitivity

iScience (2023)

Roberto Coppo Jumpei Kondo Keita Iida Mariko Okada Kunishige Onuma

Dynamic changes in cell properties lead to intratumor heterogeneity; however, the mechanisms of nongenetic cellular plasticity remain elusive. When the fate of each cell from colorectal cancer organoids was tracked through a clonogenic growth assay, the cells showed a wide range of growth ability even within the clonal organoids, consisting of distinct subpopulations; the cells generating large spheroids and the cells generating small spheroids. The cells from the small spheroids generated only small spheroids (S-pattern), while the cells from the large spheroids generated both small and large spheroids (D-pattern), both of which were tumorigenic. Transition from the S-pattern to the D-pattern occurred by various extrinsic triggers, in which Notch signaling and Musashi-1 played a key role. The S-pattern spheroids were resistant to chemotherapy and transited to the D-pattern upon drug treatment through Notch signaling. As the transition is linked to the drug resistance, it can be a therapeutic target.

Spheroid

Clonogenic assay

Organoid

10.1016/j.isci.2023.105962

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Citations (15)

Fire extinguishing properties of novel ferrocene/surfynol 465 dispersions

Fire Safety Journal (2015)

Yusuke Koshiba Keita Iida Hideo Ohtani

Particle (ecology)

10.1016/j.firesaf.2015.02.011

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Citations (20)