Search Results - "Joachimiak, Marcin P"

Zinc against COVID-19? Symptom surveillance and deficiency risk groups by Joachimiak, Marcin P

“…A wide variety of symptoms is associated with Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) infection, and these symptoms can overlap with other…”
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Integrating biological knowledge for mechanistic inference in the host-associated microbiome by Santangelo, Brook E, Apgar, Madison, Colorado, Angela Sofia Burkhart, Martin, Casey G, Sterrett, John, Wall, Elena, Joachimiak, Marcin P, Hunter, Lawrence E, Lozupone, Catherine A

“…Advances in high-throughput technologies have enhanced our ability to describe microbial communities as they relate to human health and disease. Alongside the…”
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KG-COVID-19: A Framework to Produce Customized Knowledge Graphs for COVID-19 Response by Reese, Justin T., Unni, Deepak, Callahan, Tiffany J., Cappelletti, Luca, Ravanmehr, Vida, Carbon, Seth, Shefchek, Kent A., Good, Benjamin M., Balhoff, James P., Fontana, Tommaso, Blau, Hannah, Matentzoglu, Nicolas, Harris, Nomi L., Munoz-Torres, Monica C., Haendel, Melissa A., Robinson, Peter N., Joachimiak, Marcin P., Mungall, Christopher J.

“…Integrated, up-to-date data about SARS-CoV-2 and COVID-19 is crucial for the ongoing response to the COVID-19 pandemic by the biomedical research community…”
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GRAPE for fast and scalable graph processing and random-walk-based embedding by Cappelletti, Luca, Fontana, Tommaso, Casiraghi, Elena, Ravanmehr, Vida, Callahan, Tiffany J, Cano, Carlos, Joachimiak, Marcin P, Mungall, Christopher J, Robinson, Peter N, Reese, Justin, Valentini, Giorgio

“…Graph representation learning methods opened new avenues for addressing complex, real-world problems represented by graphs. However, many graphs used in these…”
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Expression profiling of the schizont and trophozoite stages of Plasmodium falciparumwith a long-oligonucleotide microarray by Bozdech, Zbynek, Zhu, Jingchun, Joachimiak, Marcin P, Cohen, Fred E, Pulliam, Brian, DeRisi, Joseph L

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Transcriptomic and proteomic analyses of Desulfovibrio vulgaris biofilms: carbon and energy flow contribute to the distinct biofilm growth state by Clark, Melinda E, He, Zhili, Redding, Alyssa M, Joachimiak, Marcin P, Keasling, Jay D, Zhou, Jizhong Z, Arkin, Adam P, Mukhopadhyay, Aindrila, Fields, Matthew W

“…Desulfovibrio vulgaris Hildenborough is a sulfate-reducing bacterium (SRB) that is intensively studied in the context of metal corrosion and heavy-metal…”
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A bacterial sensor taxonomy across earth ecosystems for machine learning applications by Park, Helen, Joachimiak, Marcin P, Jungbluth, Sean P, Yang, Ziming, Riehl, William J, Canon, R Shane, Arkin, Adam P, Dehal, Paramvir S

“…Microbes infect, colonize, and proliferate due to their ability to sense and respond quickly to their surroundings. In this research, we extract the sensory…”
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Functional responses of methanogenic archaea to syntrophic growth by Walker, Christopher B, Redding-Johanson, Alyssa M, Baidoo, Edward E, Rajeev, Lara, He, Zhili, Hendrickson, Erik L, Joachimiak, Marcin P, Stolyar, Sergey, Arkin, Adam P, Leigh, John A, Zhou, Jizhong, Keasling, Jay D, Mukhopadhyay, Aindrila, Stahl, David A

“…Methanococcus maripaludis grown syntrophically with Desulfovibrio vulgaris was compared with M. maripaludis monocultures grown under hydrogen limitation using…”
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Estimating geographic variation of infection fatality ratios during epidemics by Ladau, Joshua, Brodie, Eoin L., Falco, Nicola, Bansal, Ishan, Hoffman, Elijah B., Joachimiak, Marcin P., Mora, Ana M., Walker, Angelica M., Wainwright, Haruko M., Wu, Yulun, Pavicic, Mirko, Jacobson, Daniel, Hess, Matthias, Brown, James B., Abuabara, Katrina

“…We aim to estimate geographic variability in total numbers of infections and infection fatality ratios (IFR; the number of deaths caused by an infection per…”
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JColorGrid: software for the visualization of biological measurements by Joachimiak, Marcin P, Weisman, Jennifer L, May, Barnaby Ch

“…Two-dimensional data colourings are an effective medium by which to represent three-dimensional data in two dimensions. Such "color-grid" representations have…”
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Global Transcriptional, Physiological, and Metabolite Analyses of the Responses of Desulfovibrio vulgaris Hildenborough to Salt Adaptation by He, Zhili, Zhou, Aifen, Baidoo, Edward, He, Qiang, Joachimiak, Marcin P, Benke, Peter, Phan, Richard, Mukhopadhyay, Aindrila, Hemme, Christopher L, Huang, Katherine, Alm, Eric J, Fields, Matthew W, Wall, Judy, Stahl, David, Hazen, Terry C, Keasling, Jay D, Arkin, Adam P, Zhou, Jizhong

“…The response of Desulfovibrio vulgaris Hildenborough to salt adaptation (long-term NaCl exposure) was examined by performing physiological, global…”
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Functional Characterization of Crp/Fnr-Type Global Transcriptional Regulators in Desulfovibrio vulgaris Hildenborough by Zhou, Aifen, Chen, Yunyu I, Zane, Grant M, He, Zhili, Hemme, Christopher L, Joachimiak, Marcin P, Baumohl, Jason K, He, Qiang, Fields, Matthew W, Arkin, Adam P, Wall, Judy D, Hazen, Terry C, Zhou, Jizhong

“…Classifications Services AEM Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley Reddit…”
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Cell-Wide Responses to Low-Oxygen Exposure in Desulfovibrio vulgaris Hildenborough by Mukhopadhyay, Aindrila, Redding, Alyssa M, Joachimiak, Marcin P, Arkin, Adam P, Borglin, Sharon E, Dehal, Paramvir S, Chakraborty, Romy, Geller, Jil T, Hazen, Terry C, He, Qiang, Joyner, Dominique C, Martin, Vincent J J, Wall, Judy D, Yang, Zamin Koo, Zhou, Jizhong, Keasling, Jay D

“…Article Usage Stats Services JB Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley…”
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How many rare diseases are there? by Haendel, Melissa, Vasilevsky, Nicole, Unni, Deepak, Bologa, Cristian, Harris, Nomi, Rehm, Heidi, Hamosh, Ada, Baynam, Gareth, Groza, Tudor, McMurry, Julie, Dawkins, Hugh, Rath, Ana, Thaxton, Courtney, Bocci, Giovanni, Joachimiak, Marcin P., Köhler, Sebastian, Robinson, Peter N., Mungall, Chris, Oprea, Tudor I.

“…A lack of robust knowledge of the number of rare diseases and the number of people affected by them limits the development of approaches to ameliorate the…”
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Deletion of the Desulfovibrio vulgaris Carbon Monoxide Sensor Invokes Global Changes in Transcription by Rajeev, Lara, Hillesland, Kristina L, Zane, Grant M, Zhou, Aifen, Joachimiak, Marcin P, He, Zhili, Zhou, Jizhong, Arkin, Adam P, Wall, Judy D, Stahl, David A

“…The carbon monoxide-sensing transcriptional factor CooA has been studied only in hydrogenogenic organisms that can grow using CO as the sole source of energy…”
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Response of Desulfovibrio vulgaris to Alkaline Stress by STOLYAR, Sergey, QIANG HE, JIZHONG ZHOU, WALL, Judy D, ARKIN, Adam P, STAHL, David A, JOACHIMIAK, Marcin P, ZHILI HE, ZAMIN KOO YANG, BORGLIN, Sharon E, JOYNER, Dominique C, HUANG, Katherine, ALM, Eric, HAZEN, Terry C

“…Article Usage Stats Services JB Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley…”
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Why was this cited? Explainable machine learning applied to COVID-19 research literature by Beranová, Lucie, Joachimiak, Marcin P., Kliegr, Tomáš, Rabby, Gollam, Sklenák, Vilém

“…Multiple studies have investigated bibliometric factors predictive of the citation count a research article will receive. In this article, we go beyond…”
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Towards a rigorous network of protein-protein interactions of the model sulfate reducer Desulfovibrio vulgaris Hildenborough by Chhabra, Swapnil R, Joachimiak, Marcin P, Petzold, Christopher J, Zane, Grant M, Price, Morgan N, Reveco, Sonia A, Fok, Veronica, Johanson, Alyssa R, Batth, Tanveer S, Singer, Mary, Chandonia, John-Marc, Joyner, Dominique, Hazen, Terry C, Arkin, Adam P, Wall, Judy D, Singh, Anup K, Keasling, Jay D

“…Protein-protein interactions offer an insight into cellular processes beyond what may be obtained by the quantitative functional genomics tools of proteomics…”
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Structured Prompt Interrogation and Recursive Extraction of Semantics (SPIRES): a method for populating knowledge bases using zero-shot learning by Caufield, J Harry, Hegde, Harshad, Emonet, Vincent, Harris, Nomi L, Joachimiak, Marcin P, Matentzoglu, Nicolas, Kim, HyeongSik, Moxon, Sierra, Reese, Justin T, Haendel, Melissa A, Robinson, Peter N, Mungall, Christopher J

“…Abstract Motivation Creating knowledge bases and ontologies is a time consuming task that relies on manual curation. AI/NLP approaches can assist expert…”
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Developing a Knowledge Graph for Pharmacokinetic Natural Product-Drug Interactions by Taneja, Sanya B., Callahan, Tiffany J., Paine, Mary F., Kane-Gill, Sandra L., Kilicoglu, Halil, Joachimiak, Marcin P., Boyce, Richard D.

“…[Display omitted] Pharmacokinetic natural product-drug interactions (NPDIs) occur when botanical or other natural products are co-consumed with pharmaceutical…”
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