<?xml version="1.0" encoding="UTF-8"?>
<urlset xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.sitemaps.org/schemas/sitemap/0.9 http://www.sitemaps.org/schemas/sitemap/0.9/sitemap.xsd" xmlns="http://www.sitemaps.org/schemas/sitemap/0.9">
<url>
<loc>https://sjcockell.github.io/portfolio/portfolio-1/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/portfolio/portfolio-2/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/posts/2012/08/blog-post-1/</loc>
<lastmod>2012-08-14T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/posts/2013/08/blog-post-2/</loc>
<lastmod>2013-08-14T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/posts/2014/08/blog-post-3/</loc>
<lastmod>2014-08-14T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/posts/2012/08/blog-post-4/</loc>
<lastmod>2015-08-14T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/jekyll/update/welcome-to-jekyll/</loc>
<lastmod>2022-05-27T02:28:48-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/posts/2012/08/blog-post-4/</loc>
<lastmod>2199-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2007-03-01-Structure-based-evaluation-of-in-silico-predictions-of-protein-protein-interactions-using-Comparative-Docking</loc>
<lastmod>2007-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2010-03-01-An-integrated-dataset-for-in-silico-drug-discovery</loc>
<lastmod>2010-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2010-06-01-Changes-in-protein-expression-profiles-between-a-low-phytic-acid-rice-Oryza-sativa-L-Ssp-japonica-line-and-its-parental-line-a-proteomic-and-bioinformatic-approach</loc>
<lastmod>2010-06-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2010-07-01-Guidelines-for-reporting-the-use-of-gel-image-informatics-in-proteomics</loc>
<lastmod>2010-07-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2011-05-01-Customizable-views-on-semantically-integrated-networks-for-systems-biology</loc>
<lastmod>2011-05-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2011-09-01-Structure-function-studies-of-an-engineered-scaffold-protein-derived-from-Stefin-A-II-Development-and-applications-of-the-SQT-variant</loc>
<lastmod>2011-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2011-10-01-BioStar-an-online-question-answer-resource-for-the-bioinformatics-community</loc>
<lastmod>2011-10-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2012-06-01-Bayesian-integration-of-networks-without-gold-standards</loc>
<lastmod>2012-06-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2012-09-01-MRE11-facilitates-the-removal-of-human-topoisomerase-II-complexes-from-genomic-DNA</loc>
<lastmod>2012-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2014-01-01-Contribution-of-natural-antisense-transcription-to-an-endogenous-siRNA-signature-in-human-cells</loc>
<lastmod>2014-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2014-02-01-Utility-of-B-13-progenitor-derived-hepatocytes-in-hepatotoxicity-and-genotoxicity-studies</loc>
<lastmod>2014-02-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2014-06-01-A-distributed-computational-search-strategy-for-the-identification-of-diagnostics-targets-application-to-finding-aptamer-targets-for-methicillin-resistant-staphylococci</loc>
<lastmod>2014-06-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2015-01-01-A-Transcriptional-Signature-of-Fatigue-Derived-from-Patients-with-Primary-Sjgrens-Syndrome</loc>
<lastmod>2015-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2015-01-01-Epigenetic-landscape-correlates-with-genetic-subtype-but-does-not-predict-outcome-in-childhood-acute-lymphoblastic-leukemia</loc>
<lastmod>2015-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2015-03-01-The-zinc-finger-protein-ZNF658-regulates-the-transcription-of-genes-involved-in-zinc-homeostasis-and-affects-ribosome-biogenesis-through-the-zinc-transcriptional-regulatory-element</loc>
<lastmod>2015-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2015-06-01-SIRT1-affects-DNA-methylation-of-polycomb-group-protein-target-genes-a-hotspot-of-the-epigenetic-shift-observed-in-ageing</loc>
<lastmod>2015-06-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2015-08-01-Genetic-Networks-Required-to-Coordinate-Chromosome-Replication-by-DNA-Polymerases-and-in-Saccharomyces-cerevisiae</loc>
<lastmod>2015-08-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2015-10-01-Genome-wide-ChIP-seq-analysis-of-human-TOP2B-occupancy-in-MCF7-breast-cancer-epithelial-cells</loc>
<lastmod>2015-10-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2016-01-01-An-Integrated-Data-Driven-Approach-to-Drug-Repositioning-Using-Gene-Disease-Associations</loc>
<lastmod>2016-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2016-01-01-Mining-integrated-semantic-networks-for-drug-repositioning-opportunities</loc>
<lastmod>2016-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2016-03-01-Zinc-sensing-by-metal-responsive-transcription-factor-1-MTF1-controls-metallothionein-and-ZnT1-expression-to-buffer-the-sensitivity-of-the-transcriptome-response-to-zinc</loc>
<lastmod>2016-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2016-06-01-Analysis-of-primary-visual-cortex-in-dementia-with-Lewy-bodies-indicates-GABAergic-involvement-associated-with-recurrent-complex-visual-hallucinations</loc>
<lastmod>2016-06-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2016-06-01-The-NF-B-subunit-c-Rel-regulates-Bach2-tumour-suppressor-expression-in-B-cell-lymphoma</loc>
<lastmod>2016-06-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2016-08-01-Transcriptomics-and-proteomics-show-that-selenium-affects-inflammation-cytoskeleton-and-cancer-pathways-in-human-rectal-biopsies</loc>
<lastmod>2016-08-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2016-09-01-A-RelAp65-Thr505-phospho-site-mutation-reveals-an-important-mechanism-regulating-NF-B-dependent-liver-regeneration-and-cancer</loc>
<lastmod>2016-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2017-02-01-Misincorporation-by-RNA-polymerase-is-a-major-source-of-transcription-pausing-in-vivo</loc>
<lastmod>2017-02-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2017-05-01-Deep-sequencing-approaches-for-the-analysis-of-prokaryotic-transcriptional-boundaries-and-dynamics</loc>
<lastmod>2017-05-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2017-07-01-Influence-of-Genetic-Variations-in-Selenoprotein-Genes-on-the-Pattern-of-Gene-Expression-after-Supplementation-with-Brazil-Nuts</loc>
<lastmod>2017-07-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2017-10-01-Cross-platform-analysis-of-transcriptomic-data-identifies-ageing-has-distinct-and-opposite-effects-on-tendon-in-males-and-females</loc>
<lastmod>2017-10-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2017-12-01-Abundant-and-equipotent-founder-cells-establish-and-maintain-acute-lymphoblastic-leukaemia</loc>
<lastmod>2017-12-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2018-06-01-Pro-inflammatory-cytokine-and-high-doses-of-ionizing-radiation-have-similar-effects-on-the-expression-of-NF-kappaB-dependent-genes</loc>
<lastmod>2018-06-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2018-07-01-B-cell-activity-markers-are-associated-with-different-disease-activity-domains-in-primary-Sjgrens-syndrome</loc>
<lastmod>2018-07-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2018-11-01-RRAD-IL4I1-CDKN1A-and-SERPINE1-genes-are-potentially-co-regulated-by-NF-B-and-p53-transcription-factors-in-cells-exposed-to-high-doses-of-ionizing-radiation</loc>
<lastmod>2018-11-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2019-01-01-An-ancient-germ-cell-specific-RNA-binding-protein-protects-the-germline-from-cryptic-splice-site-poisoning</loc>
<lastmod>2019-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2019-05-01-Deconstructing-Retinal-Organoids-Single-Cell-RNA-Seq-Reveals-the-Cellular-Components-of-Human-Pluripotent-Stem-Cell-Derived-Retina</loc>
<lastmod>2019-05-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2019-05-01-High-throughput-sequencing-identifies-aetiology-dependent-differences-in-ductular-reaction-in-human-chronic-liver-disease</loc>
<lastmod>2019-05-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2019-09-01-Androgen-regulated-transcription-of-ESRP2-drives-alternative-splicing-patterns-in-prostate-cancer</loc>
<lastmod>2019-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2019-09-01-Pax9-is-required-for-cardiovascular-development-and-interacts-with-Tbx1-in-the-pharyngeal-endoderm-to-control-4th-pharyngeal-arch-artery-morphogenesis</loc>
<lastmod>2019-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2019-10-01-Epigenetic-modifiers-DNMT3A-and-BCOR-are-recurrently-mutated-in-CYLD-cutaneous-syndrome</loc>
<lastmod>2019-10-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2020-01-01-Correlation-of-Infinium-HumanMethylation450K-and-MethylationEPIC-BeadChip-arrays-in-cartilage</loc>
<lastmod>2020-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2020-03-01-Understanding-the-complexity-of-retina-and-pluripotent-stem-cell-derived-retinal-organoids-with-single-cell-RNA-sequencing-current-progress-remaining-challenges-and-future-prospective</loc>
<lastmod>2020-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2020-09-01-Genome-wide-association-study-of-non-alcoholic-fatty-liver-and-steatohepatitis-in-a-histologically-characterised-cohort</loc>
<lastmod>2020-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2020-12-01-Microarray-analysis-of-primary-epithelial-and-fibroblast-cells-in-chronic-rhinosinusitis-without-nasal-polyps</loc>
<lastmod>2020-12-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2020-12-01-Transcriptomic-profiling-across-the-nonalcoholic-fatty-liver-disease-spectrum-reveals-gene-signatures-for-steatohepatitis-and-fibrosis</loc>
<lastmod>2020-12-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2021-04-01-NASH-limits-anti-tumour-surveillance-in-immunotherapy-treated-HCC</loc>
<lastmod>2021-04-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2021-05-01-Therapeutic-wavelengths-of-ultraviolet-B-radiation-activate-apoptotic-circadian-rhythm-redox-signalling-and-key-canonical-pathways-in-psoriatic-epidermis</loc>
<lastmod>2021-05-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2021-11-01-Network-medicine-for-disease-module-identification-and-drug-repurposing-with-the-NeDRex-platform</loc>
<lastmod>2021-11-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2021-11-01-Transcriptomics-Identify-Thrombospondin-2-as-a-Biomarker-for-NASH-and-Advanced-Liver-Fibrosis</loc>
<lastmod>2021-11-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2021-12-01-Distinct-gene-expression-profiles-between-human-preterm-derived-and-adult-derived-intestinal-organoids-exposed-to-Enterococcus-faecalis-a-pilot-study</loc>
<lastmod>2021-12-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-01-01-A-de-novo-paradigm-for-male-infertility</loc>
<lastmod>2022-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-01-01-Type-I-interferon-receptor-IFNAR2-deficiency-reveals-Zika-virus-cytopathicity-in-human-macrophages-and-microglia</loc>
<lastmod>2022-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-02-01-Increased-serum-miR-193a-5p-during-non-alcoholic-fatty-liver-disease-progression-Diagnostic-and-mechanistic-relevance</loc>
<lastmod>2022-02-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-03-01-Mechanical-Stress-Related-Epigenetic-Regulation-of-ZIC1-Transcription-Factor-in-the-Etiology-of-Postmenopausal-Osteoporosis</loc>
<lastmod>2022-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-07-01-Expanding-interactome-analyses-beyond-model-eukaryotes</loc>
<lastmod>2022-07-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-07-01-Integration-of-probabilistic-functional-networks-without-an-external-Gold-Standard</loc>
<lastmod>2022-07-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-09-01-Blood-mRNA-Expression-in-Alzheimers-Disease-and-Dementia-With-Lewy-Bodies</loc>
<lastmod>2022-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/publication/2022-09-01-Quantitative-modeling-of-human-liver-reveals-dysregulation-of-glycosphingolipid-pathways-in-nonalcoholic-fatty-liver-disease</loc>
<lastmod>2022-09-01T00:00:00-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/talks/2012-03-01-talk-1</loc>
<lastmod>2012-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/talks/2013-03-01-tutorial-1</loc>
<lastmod>2013-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/talks/2014-02-01-talk-2</loc>
<lastmod>2014-02-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/talks/2014-03-01-talk-3</loc>
<lastmod>2014-03-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/teaching/2014-spring-teaching-1</loc>
<lastmod>2014-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/teaching/2015-spring-teaching-1</loc>
<lastmod>2015-01-01T00:00:00-08:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/about/contact</loc>
</url>
<url>
<loc>https://sjcockell.github.io/about/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/archive-layout-with-content/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/categories/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/collection-archive/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/cv/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/markdown/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/non-menu-page/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/page-archive/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/portfolio/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/publications/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/sitemap/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/tags/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/talkmap.html</loc>
</url>
<url>
<loc>https://sjcockell.github.io/talks/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/teaching/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/terms/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/year-archive/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/markdown_generator/</loc>
</url>
<url>
<loc>https://sjcockell.github.io/files/paper1.pdf</loc>
<lastmod>2025-10-06T04:26:05-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/files/paper2.pdf</loc>
<lastmod>2025-10-06T04:26:05-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/files/paper3.pdf</loc>
<lastmod>2025-10-06T04:26:05-07:00</lastmod>
</url>
<url>
<loc>https://sjcockell.github.io/talkmap/map.html</loc>
<lastmod>2025-10-06T04:26:05-07:00</lastmod>
</url>
</urlset>
