Mr Ben Nichols

  • Research Associate (Autonomous Systems & Connectivity)

Biography

Dr. Ben Nichols is a research associate in Bionformatics working in the department of Human Nutrition at the University of Glasgow. As an undergradute he studied Mathematics and Statistics at Newcastle University before being awarded his PhD in Bioinformatics at the University of Glasgow. In his current role, Ben provides bioinformatics and statistical analysis and support for projects within the Human Nutrition department, the University of Glasgow's BINGO group, and as part of broader collaborations with fellow research institutions. His research interests include the human microbiome of IBD patients, and the use of bacterial DNA data to assess the efficacy of diet-based treatments.

Publications

List by: Type | Date

Jump to: 2024 | 2023 | 2022 | 2021 | 2020 | 2019 | 2014
Number of items: 24.

2024

Nichols, B. et al. (2024) Gut microbial signatures in pediatric Crohn's disease vary according to disease activity measures and are influenced by proxies of gastrointestinal transit time: an ImageKids study. Inflammatory Bowel Diseases, (doi: 10.1093/ibd/izae199) (Early Online Publication)

White, Bernadette, Curle, Jessica, Gervais, Lisa, Wands, David, Nichols, Ben, Hansen, Richard, Russell, Richard K., Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 and Milling, Simon ORCID logoORCID: https://orcid.org/0000-0003-4384-5516 (2024) Exclusive enteral nutrition impacts peripheral blood mononuclear cell profile of children with Crohn’s disease. Journal of Pediatric Gastroenterology and Nutrition, 79(1), pp. 148-153. (doi: 10.1002/jpn3.12258) (PMID:38779951)

Jatkowska, A. et al. (2024) Dose-dependent effects of enteral nutrition on the faecal microbiota and short chain fatty acids. Clinical Nutrition, 43(5), pp. 1200-1207. (doi: 10.1016/j.clnu.2024.04.010) (PMID:38615449)

Nichols, B. et al. (2024) Gut metabolome and microbiota signatures predict response to treatment with exclusive enteral nutrition in a prospective study in children with active Crohn’s disease. American Journal of Clinical Nutrition, 119(4), pp. 885-895. (doi: 10.1016/j.ajcnut.2023.12.027) (PMID:38569785) (PMCID:PMC11007740)

Jatkowska, Aleksandra, White, Bernadette, Jaskolski, Paige, Nichols, Ben, Brownson, Emily, Clowe, Jennifer, Seenan, John Paul ORCID logoORCID: https://orcid.org/0000-0002-1524-1080, Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 and Macdonald, Jonathan ORCID logoORCID: https://orcid.org/0000-0003-0249-107X (2024) Perceptions towards established and novel dietary therapies for Crohn’s disease management among adult patients: results from a questionnaire survey. Crohn's and Colitis 360, 6(1), otae008. (doi: 10.1093/crocol/otae008) (PMID:38464347) (PMCID:PMC10924435)

2023

Jatkowska, A. et al. (2023) Development and validation of the Glasgow Exclusive Enteral Nutrition Index of Compliance. Journal of Crohn's and Colitis, 17(9), pp. 1426-1435. (doi: 10.1093/ecco-jcc/jjad063) (PMID:37004165) (PMCID:PMC10588781)

Gkikas, Konstantinos ORCID logoORCID: https://orcid.org/0000-0003-1581-6566, Wan, Mhairi, Svolos, Vaios, Nichols, Ben, Hansen, Richard, Russell, Richard K. and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2023) YouTube as a source of information for food, diet-related items, and advisory comments for the management of inflammatory bowel disease. Inflammatory Bowel Diseases, (doi: 10.1093/ibd/izad076) (Early Online Publication)

2022

Bain, K. A., Nichols, B., Kerbiriou, C., Moffat, F., Ijaz, U. Z. ORCID logoORCID: https://orcid.org/0000-0001-5780-8551, Gerasimidis, K. ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, McInnes, I. B. ORCID logoORCID: https://orcid.org/0000-0002-6462-4280, Åstrand, A., Holmes, S. and Milling, S. W. F. ORCID logoORCID: https://orcid.org/0000-0003-4384-5516 (2022) Stratification of alopecia areata reveals involvement of CD4 T cell populations and altered faecal microbiota. Clinical and Experimental Immunology, 210(2), pp. 175-186. (doi: 10.1093/cei/uxac088) (PMID:36200950) (PMCID:PMC9750826)

Al Fify, M. et al. (2022) Development of age-dependent micronutrient centile charts and their utility in children with chronic gastrointestinal conditions at risk of deficiencies: a proof-of-concept study. Clinical Nutrition, 41(4), pp. 931-936. (doi: 10.1016/j.clnu.2022.02.021) (PMID:35299083)

Gerasimidis, K. et al. (2022) The effects of commonly consumed dietary fibres on the gut microbiome and its fibre fermentative capacity in adults with inflammatory bowel disease in remission. Nutrients, 14(5), 1053. (doi: 10.3390/nu14051053) (PMID:35268028) (PMCID:PMC8912623)

Neelis, Esther G., de Koning, Barbara A.E., Hulst, Jessie M., Papadopoulou, Rodanthi, Kerbiriou, Caroline, Rings, Edmond H.H.M., Wijnen, René M.H., Nichols, Ben and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2022) Gut microbiota and its diet-related activity in children with intestinal failure on long-term parenteral nutrition. Journal of Parenteral and Enteral Nutrition, 46(3), pp. 693-708. (doi: 10.1002/jpen.2188) (PMID:33982321)

Gilani, Misha, Shepherd, Sheila, Nichols, Ben, Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, Wong, Sze Choong ORCID logoORCID: https://orcid.org/0000-0003-2845-6555 and Mason, Avril (2022) Evaluation of body composition in paediatric Osteogenesis Imperfecta. Journal of Clinical Densitometry, 25(1), pp. 81-88. (doi: 10.1016/j.jocd.2021.01.012) (PMID:33582031)

2021

Gkikas, K. et al. (2021) Dietary triggers of gut inflammation following exclusive enteral nutrition in children with Crohn’s disease: a pilot study. BMC Gastroenterology, 21, 454. (doi: 10.1186/s12876-021-02029-4) (PMID:34861829)

Mckirdy, Shona, Nichols, Ben, Williamson, Sarah and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2021) Handgrip strength as a surrogate marker of lean mass and risk of malnutrition in paediatric patients. Clinical Nutrition, 40(9), pp. 5189-5195. (doi: 10.1016/j.clnu.2021.08.005) (PMID:34464858)

Naaman, Rouba, Parrett, Alison ORCID logoORCID: https://orcid.org/0000-0001-6037-5398, Bashawri, Daliah, Campo, Ines, Fleming, Katie, Nichols, Ben, Burleigh, Elizabeth, Murtagh, Janice, Reid, James and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2021) Assessment of dietary intake using food photography and video recording in free-living young adults: a comparative study. Journal of the Academy of Nutrition and Dietetics, 121(4), 749-761.e1. (doi: 10.1016/j.jand.2020.09.040) (PMID:33187931)

Jaimes, José Diógenes, Slavíčková, Andrea, Hurych, Jakub, Cinek, Ondřej, Nichols, Ben, Vodolánová, Lucie, Černý, Karel and Havlík, Jaroslav (2021) Stool metabolome-microbiota evaluation among children and adolescents with obesity, overweight, and normal-weight using ¹H NMR and 16S rRNA gene profiling. PLoS ONE, 16(3), e0247378. (doi: 10.1371/journal.pone.0247378) (PMID:33765008) (PMCID:PMC7993802)

Papadopoulou, Rodanthi, Theodorou, Maria Rafailia, Ieong, Chi San, Ballantyne, Katrina, Marshall, Danae, Verney, Anais, Roig, Marine, Nichols, Ben and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2021) The acute effect of meal timing on the gut microbiome and the cardiometabolic health of the host: a cross-over randomized control trial. Annals of Nutrition and Metabolism, 76(5), pp. 322-333. (doi: 10.1159/000510646) (PMID:33075782)

2020

Zafeiropoulou, K. et al. (2020) Alterations in intestinal microbiota of children with celiac disease at time of diagnosis and on a gluten-free diet. Gastroenterology, 159(6), 2039-2051.e20. (doi: 10.1053/j.gastro.2020.08.007) (PMID:32791131) (PMCID:PMC7773982)

Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, Bryden, Katie, Chen, Xiufen, Papachristou, Eleftheria, Verney, Anais, Roig, Marine, Hansen, Richard, Nichols, Ben, Papadopoulou, Rodanthi and Parrett, Alison ORCID logoORCID: https://orcid.org/0000-0001-6037-5398 (2020) The impact of food additives, artificial sweeteners and domestic hygiene products on the human gut microbiome and its fibre fermentation capacity. European Journal of Nutrition, 59(7), pp. 3213-3230. (doi: 10.1007/s00394-019-02161-8) (PMID:31853641) (PMCID:PMC7501109)

Logan, M. et al. (2020) Analysis of 61 exclusive enteral nutrition formulas used in management of active Crohn's disease - new insights into dietary disease triggers. Alimentary Pharmacology and Therapeutics, 51(10), pp. 935-947. (doi: 10.1111/apt.15695) (PMID:32249975)

2019

Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, Svolos, Vaios, Nichols, Ben, Papadopoulou, Rodanthi, Quince, Christopher, Ijaz, Umer Z. ORCID logoORCID: https://orcid.org/0000-0001-5780-8551, Milling, Simon ORCID logoORCID: https://orcid.org/0000-0003-4384-5516, Gaya, Daniel R., Russell, Richard K. and Hansen, Richard (2019) Reply. Gastroenterology, 157(4), pp. 1161-1162. (doi: 10.1053/j.gastro.2019.08.015) (PMID:31408620)

Svolos, V. et al. (2019) Treatment of active Crohn’s disease with an ordinary food-based diet that replicates exclusive enteral nutrition. Gastroenterology, 156(5), 1354-1367.e6. (doi: 10.1053/j.gastro.2018.12.002) (PMID:30550821)

Neelis, Esther, de Koning, Barbara, Rings, Edmond, Wijnen, René, Nichols, Ben, Hulst, Jessie and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2019) The gut microbiome in patients with intestinal failure: Current evidence and implications for clinical practice. Journal of Parenteral and Enteral Nutrition, 43(2), pp. 194-205. (doi: 10.1002/jpen.1423) (PMID:30070709)

2014

Fonseca, Vera G., Carvalho, Gary R., Nichols, Ben, Quince, Christopher, Johnson, Harriet F., Neill, Simon P., Lambshead, John D., Thomas, W. Kelley, Power, Deborah M. and Creer, Simon (2014) Metagenetic analysis of patterns of distribution and diversity of marine meiobenthic eukaryotes. Global Ecology and Biogeography, 23(11), pp. 1293-1302. (doi: 10.1111/geb.12223)

This list was generated on Sat Jun 21 23:55:32 2025 BST.
Jump to: Articles
Number of items: 24.

Articles

Nichols, B. et al. (2024) Gut microbial signatures in pediatric Crohn's disease vary according to disease activity measures and are influenced by proxies of gastrointestinal transit time: an ImageKids study. Inflammatory Bowel Diseases, (doi: 10.1093/ibd/izae199) (Early Online Publication)

White, Bernadette, Curle, Jessica, Gervais, Lisa, Wands, David, Nichols, Ben, Hansen, Richard, Russell, Richard K., Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 and Milling, Simon ORCID logoORCID: https://orcid.org/0000-0003-4384-5516 (2024) Exclusive enteral nutrition impacts peripheral blood mononuclear cell profile of children with Crohn’s disease. Journal of Pediatric Gastroenterology and Nutrition, 79(1), pp. 148-153. (doi: 10.1002/jpn3.12258) (PMID:38779951)

Jatkowska, A. et al. (2024) Dose-dependent effects of enteral nutrition on the faecal microbiota and short chain fatty acids. Clinical Nutrition, 43(5), pp. 1200-1207. (doi: 10.1016/j.clnu.2024.04.010) (PMID:38615449)

Nichols, B. et al. (2024) Gut metabolome and microbiota signatures predict response to treatment with exclusive enteral nutrition in a prospective study in children with active Crohn’s disease. American Journal of Clinical Nutrition, 119(4), pp. 885-895. (doi: 10.1016/j.ajcnut.2023.12.027) (PMID:38569785) (PMCID:PMC11007740)

Jatkowska, Aleksandra, White, Bernadette, Jaskolski, Paige, Nichols, Ben, Brownson, Emily, Clowe, Jennifer, Seenan, John Paul ORCID logoORCID: https://orcid.org/0000-0002-1524-1080, Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 and Macdonald, Jonathan ORCID logoORCID: https://orcid.org/0000-0003-0249-107X (2024) Perceptions towards established and novel dietary therapies for Crohn’s disease management among adult patients: results from a questionnaire survey. Crohn's and Colitis 360, 6(1), otae008. (doi: 10.1093/crocol/otae008) (PMID:38464347) (PMCID:PMC10924435)

Jatkowska, A. et al. (2023) Development and validation of the Glasgow Exclusive Enteral Nutrition Index of Compliance. Journal of Crohn's and Colitis, 17(9), pp. 1426-1435. (doi: 10.1093/ecco-jcc/jjad063) (PMID:37004165) (PMCID:PMC10588781)

Gkikas, Konstantinos ORCID logoORCID: https://orcid.org/0000-0003-1581-6566, Wan, Mhairi, Svolos, Vaios, Nichols, Ben, Hansen, Richard, Russell, Richard K. and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2023) YouTube as a source of information for food, diet-related items, and advisory comments for the management of inflammatory bowel disease. Inflammatory Bowel Diseases, (doi: 10.1093/ibd/izad076) (Early Online Publication)

Bain, K. A., Nichols, B., Kerbiriou, C., Moffat, F., Ijaz, U. Z. ORCID logoORCID: https://orcid.org/0000-0001-5780-8551, Gerasimidis, K. ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, McInnes, I. B. ORCID logoORCID: https://orcid.org/0000-0002-6462-4280, Åstrand, A., Holmes, S. and Milling, S. W. F. ORCID logoORCID: https://orcid.org/0000-0003-4384-5516 (2022) Stratification of alopecia areata reveals involvement of CD4 T cell populations and altered faecal microbiota. Clinical and Experimental Immunology, 210(2), pp. 175-186. (doi: 10.1093/cei/uxac088) (PMID:36200950) (PMCID:PMC9750826)

Al Fify, M. et al. (2022) Development of age-dependent micronutrient centile charts and their utility in children with chronic gastrointestinal conditions at risk of deficiencies: a proof-of-concept study. Clinical Nutrition, 41(4), pp. 931-936. (doi: 10.1016/j.clnu.2022.02.021) (PMID:35299083)

Gerasimidis, K. et al. (2022) The effects of commonly consumed dietary fibres on the gut microbiome and its fibre fermentative capacity in adults with inflammatory bowel disease in remission. Nutrients, 14(5), 1053. (doi: 10.3390/nu14051053) (PMID:35268028) (PMCID:PMC8912623)

Neelis, Esther G., de Koning, Barbara A.E., Hulst, Jessie M., Papadopoulou, Rodanthi, Kerbiriou, Caroline, Rings, Edmond H.H.M., Wijnen, René M.H., Nichols, Ben and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2022) Gut microbiota and its diet-related activity in children with intestinal failure on long-term parenteral nutrition. Journal of Parenteral and Enteral Nutrition, 46(3), pp. 693-708. (doi: 10.1002/jpen.2188) (PMID:33982321)

Gilani, Misha, Shepherd, Sheila, Nichols, Ben, Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, Wong, Sze Choong ORCID logoORCID: https://orcid.org/0000-0003-2845-6555 and Mason, Avril (2022) Evaluation of body composition in paediatric Osteogenesis Imperfecta. Journal of Clinical Densitometry, 25(1), pp. 81-88. (doi: 10.1016/j.jocd.2021.01.012) (PMID:33582031)

Gkikas, K. et al. (2021) Dietary triggers of gut inflammation following exclusive enteral nutrition in children with Crohn’s disease: a pilot study. BMC Gastroenterology, 21, 454. (doi: 10.1186/s12876-021-02029-4) (PMID:34861829)

Mckirdy, Shona, Nichols, Ben, Williamson, Sarah and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2021) Handgrip strength as a surrogate marker of lean mass and risk of malnutrition in paediatric patients. Clinical Nutrition, 40(9), pp. 5189-5195. (doi: 10.1016/j.clnu.2021.08.005) (PMID:34464858)

Naaman, Rouba, Parrett, Alison ORCID logoORCID: https://orcid.org/0000-0001-6037-5398, Bashawri, Daliah, Campo, Ines, Fleming, Katie, Nichols, Ben, Burleigh, Elizabeth, Murtagh, Janice, Reid, James and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2021) Assessment of dietary intake using food photography and video recording in free-living young adults: a comparative study. Journal of the Academy of Nutrition and Dietetics, 121(4), 749-761.e1. (doi: 10.1016/j.jand.2020.09.040) (PMID:33187931)

Jaimes, José Diógenes, Slavíčková, Andrea, Hurych, Jakub, Cinek, Ondřej, Nichols, Ben, Vodolánová, Lucie, Černý, Karel and Havlík, Jaroslav (2021) Stool metabolome-microbiota evaluation among children and adolescents with obesity, overweight, and normal-weight using ¹H NMR and 16S rRNA gene profiling. PLoS ONE, 16(3), e0247378. (doi: 10.1371/journal.pone.0247378) (PMID:33765008) (PMCID:PMC7993802)

Papadopoulou, Rodanthi, Theodorou, Maria Rafailia, Ieong, Chi San, Ballantyne, Katrina, Marshall, Danae, Verney, Anais, Roig, Marine, Nichols, Ben and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2021) The acute effect of meal timing on the gut microbiome and the cardiometabolic health of the host: a cross-over randomized control trial. Annals of Nutrition and Metabolism, 76(5), pp. 322-333. (doi: 10.1159/000510646) (PMID:33075782)

Zafeiropoulou, K. et al. (2020) Alterations in intestinal microbiota of children with celiac disease at time of diagnosis and on a gluten-free diet. Gastroenterology, 159(6), 2039-2051.e20. (doi: 10.1053/j.gastro.2020.08.007) (PMID:32791131) (PMCID:PMC7773982)

Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, Bryden, Katie, Chen, Xiufen, Papachristou, Eleftheria, Verney, Anais, Roig, Marine, Hansen, Richard, Nichols, Ben, Papadopoulou, Rodanthi and Parrett, Alison ORCID logoORCID: https://orcid.org/0000-0001-6037-5398 (2020) The impact of food additives, artificial sweeteners and domestic hygiene products on the human gut microbiome and its fibre fermentation capacity. European Journal of Nutrition, 59(7), pp. 3213-3230. (doi: 10.1007/s00394-019-02161-8) (PMID:31853641) (PMCID:PMC7501109)

Logan, M. et al. (2020) Analysis of 61 exclusive enteral nutrition formulas used in management of active Crohn's disease - new insights into dietary disease triggers. Alimentary Pharmacology and Therapeutics, 51(10), pp. 935-947. (doi: 10.1111/apt.15695) (PMID:32249975)

Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200, Svolos, Vaios, Nichols, Ben, Papadopoulou, Rodanthi, Quince, Christopher, Ijaz, Umer Z. ORCID logoORCID: https://orcid.org/0000-0001-5780-8551, Milling, Simon ORCID logoORCID: https://orcid.org/0000-0003-4384-5516, Gaya, Daniel R., Russell, Richard K. and Hansen, Richard (2019) Reply. Gastroenterology, 157(4), pp. 1161-1162. (doi: 10.1053/j.gastro.2019.08.015) (PMID:31408620)

Svolos, V. et al. (2019) Treatment of active Crohn’s disease with an ordinary food-based diet that replicates exclusive enteral nutrition. Gastroenterology, 156(5), 1354-1367.e6. (doi: 10.1053/j.gastro.2018.12.002) (PMID:30550821)

Neelis, Esther, de Koning, Barbara, Rings, Edmond, Wijnen, René, Nichols, Ben, Hulst, Jessie and Gerasimidis, Konstantinos ORCID logoORCID: https://orcid.org/0000-0001-9432-2200 (2019) The gut microbiome in patients with intestinal failure: Current evidence and implications for clinical practice. Journal of Parenteral and Enteral Nutrition, 43(2), pp. 194-205. (doi: 10.1002/jpen.1423) (PMID:30070709)

Fonseca, Vera G., Carvalho, Gary R., Nichols, Ben, Quince, Christopher, Johnson, Harriet F., Neill, Simon P., Lambshead, John D., Thomas, W. Kelley, Power, Deborah M. and Creer, Simon (2014) Metagenetic analysis of patterns of distribution and diversity of marine meiobenthic eukaryotes. Global Ecology and Biogeography, 23(11), pp. 1293-1302. (doi: 10.1111/geb.12223)

This list was generated on Sat Jun 21 23:55:32 2025 BST.

Research datasets

Jump to: 2023 | 2021
Number of items: 3.

2023

Jatkowska, A., White, B., Jaskolski, P., Nichols, B., Brownson, E., Clowe, J., Seenan, J. P. , Gerasimidis, K. and MacDonald, J. (2023) Perceptions towards established and novel dietary therapies for Crohn’s disease management among adult patients: results from a questionnaire survey. [Data Collection]

2021

AL FIFY, M., Nichols, B., Alexiadou, L., Stefanowitz, F., Armstrong, J., Russell, R., Raudaschl, A., Pinto, N., Duncan, A., Catchpole, A., Galloway, P., Talwar, D. and Gerasimidis, K. (2021) Development of an age-dependent micronutrient centile charts and their utility in children with chronic gastrointestinal conditions at risk of deficiencies: A proof-of-concept study. [Data Collection]

Mckirdy, S., Williamson, S., Nichols, B. and Gerasimidis, K. (2021) Handgrip strength as a surrogate marker of lean mass and risk of malnutrition in paediatric patients. [Data Collection]

This list was generated on Sun Jun 22 05:28:13 2025 BST.