Evidence map›Paper›PMID 39178828›Full record

ReviewCell2024

The evolution of computational research in a data-centric world.

Dhrithi Deshpande, Karishma Chhugani, Tejasvene Ramesh, Matteo Pellegrini, Sagiv Shifman, Malak S Abedalthagafi, Saleh Alqahtani, Jimmie Ye, Xiaole Shirley Liu, Jeffrey T Leek and 7 more

Abstract readReview
PubMed Full text at PMC Publisher
In one paragraph

Review in Cell, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing 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

9 citing papers in PubMed.

  1. Article
  2. Article
  3. Review
  4. Review
  5. Peptide-based drug design using generative AI.Chemical communications (Cambridge, England) · 2026
    Review
  6. Article
  7. Article
  8. Article
  9. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

17 authors.

Dhrithi DeshpandeTitus Department of Clinical Pharmacy, Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA 90089, USA. Electronic address: dhrithideshpande@gmail.com.
Karishma ChhuganiTitus Department of Clinical Pharmacy, Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA 90089, USA.
Tejasvene RameshDepartment of Pharmacology and Pharmaceutical Sciences, Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA 90089, USA.
Matteo PellegriniDepartment of Molecular, Cell and Developmental Biology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Sagiv ShifmanDepartment of Genetics, The Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem 9190401, Israel.
Malak S AbedalthagafiGenomics Research Department, King Fahad Medical City, Riyadh, Saudi Arabia; Department of Pathology & Laboratory Medicine, Emory University Hospital, Atlanta, GA, USA.
Saleh AlqahtaniThe Liver Transplant Unit, King Faisal Specialist Hospital and Research Center, Riyadh, Saudi Arabia; The Division of Gastroenterology and Hepatology, Johns Hopkins University, Baltimore, MD 21205, USA.
Jimmie YeDepartment of Epidemiology & Biostatistics, Institute for Human Genetics, University of California, San Francisco, 513 Parnassus Avenue S965F, San Francisco, CA 94143, USA.
Xiaole Shirley LiuGV20 Oncotherapy, One Broadway, 14th Floor, Kendall Square, Cambridge, MA 02142, USA.
Jeffrey T LeekBiostatistics and Oncology at the Johns Hopkins Bloomberg School of Public Health and Johns Hopkins Data Science Lab, John Hopkins University, 615 N. Wolfe Street, Baltimore, MD 21205, USA.
Alvis BrazmaEMBL European Bioinformatics Institute, Wellcome Genome Campus, Hinxton CB10 1SD, UK.
Roel A OphoffDepartment of Psychiatry and Human Genetics, Center for Neurobehavioral Genetics, University of California, Los Angeles, Los Angeles, CA, USA.
Gauri RaoTitus Department of Clinical Pharmacy, Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA 90089, USA.
Atul J ButteBakar Computational Health Sciences Institute, University of California, San Francisco, 490 Illinois Street, San Francisco, CA 94158, USA.
Jason H MooreDepartment of Computational Biomedicine, Cedars-Sinai Medical Center, 700 N. San Vicente Boulevard, Pacific Design Center Suite G540, West Hollywood, CA 90068, USA.
Vsevolod KatritchDepartment of Quantitative and Computational Biology, USC Dornsife College of Letters, Arts and Sciences, University of Southern California, Los Angeles, CA 90007, USA.
Serghei MangulDepartment of Quantitative and Computational Biology, USC Dornsife College of Letters, Arts and Sciences, University of Southern California, Los Angeles, CA 90007, USA. Electronic address: serghei.mangul@gmail.com.

Funding

Implementing the Genomic Data Science Analysis, Visualization, and Informatics Lab-space (AnVIL)U24HG010263 · NHGRI · JOHNS HOPKINS UNIVERSITY · PI Enis Afgan, VINCENT JAMES CAREY · 2018 to 2026
$23.8M
Scalable multi-mode education to increase use of ITCR tools by diverse analystsUE5CA254170 · NCI · JOHNS HOPKINS UNIVERSITY · PI GRIFFITH, MALACHI, GRIFFITH, OBI L. · 2020 to 2024
$3.6M
Data analysis tools for leveraging massive public data to improve hypothesis-driven researchR35GM144128 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI Jeffrey T. Leek · 2022 to 2026
$2.2M
A massive study of data science to address the scientific reproducibility crisisR01GM115440 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI LEEK, JEFFREY T. · 2016 to 2019
$1.5M
NCI NIH HHS UE5 CA254170NHGRI NIH HHS U24 HG010263NIGMS NIH HHS R01 GM115440NIGMS NIH HHS R35 GM144128
6 · The paper itself

Abstract

Computational data-centric research techniques play a prevalent and multi-disciplinary role in life science research. In the past, scientists in wet labs generated the data, and computational researchers focused on creating tools for the analysis of those data. Computational researchers are now becoming more independent and taking leadership roles within biomedical projects, leveraging the increased availability of public data. We are now able to generate vast amounts of data, and the challenge has shifted from data generation to data analysis. Here we discuss the pitfalls, challenges, and opportunities facing the field of data-centric research in biology. We discuss the evolving perception of computational data-driven research and its rise as an independent domain in biomedical research while also addressing the significant collaborative opportunities that arise from integrating computational research with experimental and translational biology. Additionally, we discuss the future of data-centric research and its applications across various areas of the biomedical field.

Indexed as

Biomedical ResearchComputational BiologyHumans

Identifiers

PMID39178828
PMCPMC11938813

What OpenQuestion holds

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Read underepoch 390

Registered trials

None linked

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.