Evidence map›Paper›PMID 38755140›Full record

ArticleNature communications2024

1q amplification and PHF19 expressing high-risk cells are associated with relapsed/refractory multiple myeloma.

Travis S Johnson, Parvathi Sudha, Enze Liu, Nathan Becker, Sylvia Robertson, Patrick Blaney, Gareth Morgan, Vivek S Chopra, Cedric Dos Santos, Michael Nixon and 5 more

Abstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

11 citing papers in PubMed.

  1. Article
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  5. Review
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  10. Review
  11. Identification of Therapy-Induced Clonal Evolution and Resistance Pathways in Minimal Residual Clones in Multiple Myeloma through Single-Cell Sequencing.Clinical cancer research : an official journal of the American Association for Cancer Research · 2024
    Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

15 authors.

Travis S JohnsonDepartment of Biostatistics and Health Data Science, School of Medicine, Indiana University, Indianapolis, IN, USA.ORCID 0000-0002-4628-2256
Parvathi SudhaMelvin and Bren Simon Comprehensive Cancer Center, Division of Hematology and Oncology, School of Medicine, Indiana University, Indianapolis, IN, USA.ORCID 0000-0002-6970-5215
Enze LiuMelvin and Bren Simon Comprehensive Cancer Center, Division of Hematology and Oncology, School of Medicine, Indiana University, Indianapolis, IN, USA.
Nathan BeckerMelvin and Bren Simon Comprehensive Cancer Center, Division of Hematology and Oncology, School of Medicine, Indiana University, Indianapolis, IN, USA.
Sylvia RobertsonIndiana Biosciences Research Institute, Indianapolis, IN, USA.
Patrick BlaneyPerlmutter Cancer Center, Langone Health, New York University, New York, NY, USA.ORCID 0000-0002-9319-8866
Gareth MorganPerlmutter Cancer Center, Langone Health, New York University, New York, NY, USA.ORCID 0000-0002-4271-6360
Vivek S ChopraGenentech Inc., South San Francisco, CA, USA.
Cedric Dos SantosGenentech Inc., South San Francisco, CA, USA.
Michael NixonRoche Inc., Indianapolis, IN, USA.
Kun HuangDepartment of Biostatistics and Health Data Science, School of Medicine, Indiana University, Indianapolis, IN, USA.ORCID 0000-0002-8530-370X
Attaya SuvannasankhaMelvin and Bren Simon Comprehensive Cancer Center, Division of Hematology and Oncology, School of Medicine, Indiana University, Indianapolis, IN, USA.ORCID 0000-0001-9445-8781
Mohammad Abu ZaidMelvin and Bren Simon Comprehensive Cancer Center, Division of Hematology and Oncology, School of Medicine, Indiana University, Indianapolis, IN, USA.ORCID 0000-0002-4018-6941
Rafat AbonourMelvin and Bren Simon Comprehensive Cancer Center, Division of Hematology and Oncology, School of Medicine, Indiana University, Indianapolis, IN, USA.
Brian A WalkerCenter for Computational Biology and Bioinformatics, School of Medicine, Indiana University, Indianapolis, IN, USA. bw75@iu.edu.ORCID 0000-0002-8615-6254

Funding

Tumor Microenvironment and Metastasis ProgramP30CA082709 · NCI · INDIANA UNIV-PURDUE UNIV AT INDIANAPOLIS · PI David W Clapp · 1999 to 2026
$59.3M
A deep-transfer-learning framework to transfer clinical information to single cells and spatial locations in cancer tissuesR21CA264339 · NCI · INDIANA UNIVERSITY INDIANAPOLIS · PI JOHNSON, TRAVIS STEELE, ZHANG, JIE · 2022 to 2023
$394k
NCI Cancer CenterNCI NIH HHS P30 CA082709NCI NIH HHS R21 CA264339
6 · The paper itself

Abstract

Multiple Myeloma is an incurable plasma cell malignancy with a poor survival rate that is usually treated with immunomodulatory drugs (iMiDs) and proteosome inhibitors (PIs). The malignant plasma cells quickly become resistant to these agents causing relapse and uncontrolled growth of resistant clones. From whole genome sequencing (WGS) and RNA sequencing (RNA-seq) studies, different high-risk translocation, copy number, mutational, and transcriptional markers can be identified. One of these markers, PHF19, epigenetically regulates cell cycle and other processes and is already studied using RNA-seq. In this study, we generate a large (325,025 cells and 49 patients) single cell multi-omic dataset and jointly quantify ATAC- and RNA-seq for each cell and matched genomic profiles for each patient. We identify an association between one plasma cell subtype with myeloma progression that we call relapsed/refractory plasma cells (RRPCs). These cells are associated with chromosome 1q alterations, TP53 mutations, and higher expression of PHF19. We also identify downstream regulation of cell cycle inhibitors in these cells, possible regulation by the transcription factor (TF) PBX1 on chromosome 1q, and determine that PHF19 may be acting primarily through this subset of cells.

Indexed as

Chromosomes, Human, Pair 1DNA-Binding ProteinsMultiple MyelomaTranscription FactorsDrug Resistance, NeoplasmGene AmplificationGene Expression Regulation, NeoplasticHumansMutationNeoplasm Recurrence, LocalPlasma CellsTumor Suppressor Protein p53DNA-Binding ProteinsPHF19 protein, humanTranscription FactorsTumor Suppressor Protein p53

Identifiers

PMID38755140
PMCPMC11099140

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.