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Spatiotemporal analysis of human intestinal development at single-cell resolution

Cell, 2021-02, Vol.184 (3), p.810-826.e23

2021

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Colonic epithelial cell diversity in health and inflammatory bowel disease

Nature (London), 2019-03, Vol.567 (7746), p.49-55

2019

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Structural Remodeling of the Human Colonic Mesenchyme in Inflammatory Bowel Disease

Cell, 2018-10, Vol.175 (2), p.372-386.e17

2018

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Single-cell atlas of colonic CD8 + T cells in ulcerative colitis

Nature medicine, 2020-09, Vol.26 (9), p.1480-1490

2020

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The rise and fall of machine learning methods in biomedical research

F1000 research, 2017-01, Vol.6, p.2012-2012

Koohy, Hashem

2017

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In silico identification of vaccine targets for 2019-nCoV [version 2; peer review: 3 approved]

F1000 research, 2020, Vol.9, p.145-145

2020

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In silico identification of vaccine targets for 2019-nCoV [version 1; peer review: 2 approved]

F1000 research, 2020, Vol.9, p.145

2020

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Legislate against threats to women's education

Nature (London), 2023-02, Vol.614 (7948), p.413-413

Koohy, Hashem

2023

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HLA‐dependent variation in SARS‐CoV‐2 CD8 + T cell cross‐reactivity with human coronaviruses

Immunology, 2022-05, Vol.166 (1), p.78-103

2022

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Predicting Cross-Reactivity and Antigen Specificity of T Cell Receptors

Frontiers in immunology, 2020-10, Vol.11, p.565096-565096

2020

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A comparison of peak callers used for DNase-Seq data

PloS one, 2014-05, Vol.9 (5), p.e96303-e96303

2014

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Evaluating performance of existing computational models in predicting CD8+ T cell pathogenic epitopes and cancer neoantigens

Briefings in bioinformatics, 2022-05, Vol.23 (3)

2022

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Potential CD8+ T Cell Cross-Reactivity Against SARS-CoV-2 Conferred by Other Coronavirus Strains

Frontiers in immunology, 2020-11, Vol.11, p.579480-579480

2020

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Chromatin accessibility data sets show bias due to sequence specificity of the DNase I enzyme

PloS one, 2013-07, Vol.8 (7), p.e69853-e69853

2013

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HLA variants have different preferences to present proteins with specific molecular functions which are complemented in frequent haplotypes

Frontiers in immunology, 2022-12, Vol.13, p.1067463-1067463

2022

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A robust deep learning workflow to predict CD8 + T-cell epitopes

Genome medicine, 2023-09, Vol.15 (1), p.70-70, Article 70

2023

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Genome organization and chromatin analysis identify transcriptional downregulation of insulin-like growth factor signaling as a hallmark of aging in developing B cells

Genome Biology, 2018-09, Vol.19 (1), p.126-126, Article 126

2018

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Local Chromatin Features Including PU.1 and IKAROS Binding and H3K4 Methylation Shape the Repertoire of Immunoglobulin Kappa Genes Chosen for V(D)J Recombination

Frontiers in immunology, 2017-11, Vol.8, p.1550-1550

2017

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Two Mutually Exclusive Local Chromatin States Drive Efficient V(D)J Recombination

Cell reports (Cambridge), 2016-06, Vol.15 (11), p.2475-2487

2016

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Dual RNA sequencing reveals dendritic cell reprogramming in response to typhoidal Salmonella invasion

Communications biology, 2022-02, Vol.5 (1), p.111-111, Article 111

2022

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Ethics: disclose use of AI in scientific manuscripts

Nature (London), 2023-02, Vol.614 (7948), p.413-413

Gaggioli, Andrea

2023

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Can we predict T cell specificity with digital biology and machine learning?

Nature reviews. Immunology, 2023-08, Vol.23 (8), p.511

2023

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The rise and fall of machine learning methods in biomedical research

F1000 research, 2017, Vol.6, p.2012

Koohy, Hashem

2017

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Can AlphaFold's breakthrough in protein structure help decode the fundamental principles of adaptive cellular immunity?

Nature methods, 2024-05, Vol.21 (5), p.766

2024

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Spatiotemporal analysis of human intestinal development at single-cell resolution

Colonic epithelial cell diversity in health and inflammatory bowel disease

Structural Remodeling of the Human Colonic Mesenchyme in Inflammatory Bowel Disease

Single-cell atlas of colonic CD8 + T cells in ulcerative colitis

The rise and fall of machine learning methods in biomedical research

In silico identification of vaccine targets for 2019-nCoV [version 2; peer review: 3 approved]

In silico identification of vaccine targets for 2019-nCoV [version 1; peer review: 2 approved]

Legislate against threats to women's education

HLA‐dependent variation in SARS‐CoV‐2 CD8 + T cell cross‐reactivity with human coronaviruses

Predicting Cross-Reactivity and Antigen Specificity of T Cell Receptors

A comparison of peak callers used for DNase-Seq data

Discovery of a CD10-negative B-progenitor in human fetal life identifies unique ontogeny-related developmental programs

Evaluating performance of existing computational models in predicting CD8+ T cell pathogenic epitopes and cancer neoantigens

Potential CD8+ T Cell Cross-Reactivity Against SARS-CoV-2 Conferred by Other Coronavirus Strains

Chromatin accessibility data sets show bias due to sequence specificity of the DNase I enzyme

HLA variants have different preferences to present proteins with specific molecular functions which are complemented in frequent haplotypes

A robust deep learning workflow to predict CD8 + T-cell epitopes

Genome organization and chromatin analysis identify transcriptional downregulation of insulin-like growth factor signaling as a hallmark of aging in developing B cells

Local Chromatin Features Including PU.1 and IKAROS Binding and H3K4 Methylation Shape the Repertoire of Immunoglobulin Kappa Genes Chosen for V(D)J Recombination

Two Mutually Exclusive Local Chromatin States Drive Efficient V(D)J Recombination

Dual RNA sequencing reveals dendritic cell reprogramming in response to typhoidal Salmonella invasion

Ethics: disclose use of AI in scientific manuscripts

Can we predict T cell specificity with digital biology and machine learning?

The rise and fall of machine learning methods in biomedical research

Can AlphaFold's breakthrough in protein structure help decode the fundamental principles of adaptive cellular immunity?

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