Evidence map›Paper›PMID 42557334›Full record

ArticleNature2026

An expanded codebook of human transcription factor DNA-binding specificity.

Arttu Jolma, Kaitlin U Laverty, Ali Fathi, Ally W H Yang, Isaac Yellan, Ilya E Vorontsov, Antoni J Gralak, Judith F Kribelbauer-Swietek, Sachi Inukai, Rozita Razavi and 20 more

Abstract read
In one paragraph

Article in Nature, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
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

30 authors.

Arttu Jolma *Donnelly Centre, University of Toronto, Toronto, Ontario, Canada.ORCID http://orcid.org/0000-0002-2543-7490
Kaitlin U Laverty *Donnelly Centre, University of Toronto, Toronto, Ontario, Canada.ORCID http://orcid.org/0009-0004-4341-4665
Ali Fathi *Donnelly Centre, University of Toronto, Toronto, Ontario, Canada.ORCID http://orcid.org/0009-0007-1441-9653
Ally W H Yang *Donnelly Centre, University of Toronto, Toronto, Ontario, Canada.
Isaac Yellan *Donnelly Centre, University of Toronto, Toronto, Ontario, Canada.ORCID http://orcid.org/0000-0001-6622-1189
Ilya E Vorontsov *Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia.ORCID http://orcid.org/0000-0001-8888-0804
Antoni J GralakLaboratory of Systems Biology and Genetics, Institute of Bioengineering, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.ORCID http://orcid.org/0009-0007-1086-6165
Judith F Kribelbauer-SwietekLaboratory of Systems Biology and Genetics, Institute of Bioengineering, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.ORCID http://orcid.org/0000-0002-8072-7773
Sachi InukaiLaboratory of Systems Biology and Genetics, Institute of Bioengineering, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland.
Rozita RazaviDonnelly Centre, University of Toronto, Toronto, Ontario, Canada.
Mihai AlbuDonnelly Centre, University of Toronto, Toronto, Ontario, Canada.
Alexander BrechalovDonnelly Centre, University of Toronto, Toronto, Ontario, Canada.
Zain M PatelDonnelly Centre, University of Toronto, Toronto, Ontario, Canada.
Vladimir NozdrinFaculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia.ORCID http://orcid.org/0009-0004-3053-1387
Georgy MeshcheryakovInstitute of Protein Research, Russian Academy of Sciences, Pushchino, Russia.ORCID http://orcid.org/0000-0003-0751-8286
Andrey BuyanInstitute of Protein Research, Russian Academy of Sciences, Pushchino, Russia.ORCID http://orcid.org/0000-0001-9105-4028
Ivan KozinVavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia.ORCID http://orcid.org/0009-0009-4603-8550
Sergey AbramovAltius Institute for Biomedical Sciences, Seattle, WA, USA.ORCID http://orcid.org/0000-0002-3334-5334
Alexandr BoytsovVavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia.ORCID http://orcid.org/0000-0002-2712-8368
Codebook Consortium
Quaid MorrisComputational and Systems Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA.ORCID http://orcid.org/0000-0002-2760-6999
Matthew T WeirauchCenter for Autoimmune Genomics and Etiology, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA.ORCID http://orcid.org/0000-0001-7977-9122
Oriol FornesDepartment of Medical Genetics, Centre for Molecular Medicine and Therapeutics, BC Children's Hospital Research Institute, University of British Columbia, Vancouver, British Columbia, Canada.ORCID http://orcid.org/0000-0002-5969-3054
Vsevolod J MakeevVavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia.ORCID http://orcid.org/0000-0001-9405-9748
Jan GrauInstitute of Computer Science, Martin Luther University Halle-Wittenberg, Halle, Germany.ORCID http://orcid.org/0000-0003-2081-6405
Ivo GrosseInstitute of Computer Science, Martin Luther University Halle-Wittenberg, Halle, Germany.ORCID http://orcid.org/0000-0001-5318-4825
Philipp BucherSwiss Institute of Bioinformatics, Lausanne, Switzerland.ORCID http://orcid.org/0000-0003-4824-885X
Bart DeplanckeLaboratory of Systems Biology and Genetics, Institute of Bioengineering, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland. bart.deplancke@epfl.ch.ORCID http://orcid.org/0000-0001-9935-843X
Ivan V KulakovskiyVavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia. ivan.kulakovskiy@gmail.com.ORCID http://orcid.org/0000-0002-6554-8128
Timothy R HughesDonnelly Centre, University of Toronto, Toronto, Ontario, Canada. t.hughes@utoronto.ca.ORCID http://orcid.org/0000-0002-8721-4719

Funding

X-RAY CRYSTALLOGRAPHYP30CA008748 · NCI · SLOAN-KETTERING INSTITUTE FOR CANCER RES · PI SELWYN M VICKERS · 1985 to 2026
$347.4M
NCI NIH HHS P30 CA008748
6 · The paper itself

Abstract

Gene expression is regulated by transcription factors (TFs), which recognize specific DNA sequence motifs. Several hundred putative human TFs, identified mainly by an apparent DNA-binding domain, lack known binding motifs

Indexed as

Binding SitesDNANucleotide MotifsTranscription FactorsBase SequenceGene Expression RegulationGenome, HumanHumansPromoter Regions, GeneticProtein BindingDNATranscription Factors

Identifiers

PMID42557334
PMCPMC13538051

What OpenQuestion holds

Textmetadata
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.