- by /u/Immediate-Can6361Hey everyone! *I have never posted on reddit but thought this would be helpful for me since I cannot find much online I am using un-targetted metabolomics methods to look at soils and feel like I am getting way too many synthetic compounds in my output even after filtering. Do you have to comb it by hand to figure out which compounds are actual metabolites or is there an easier way? I know synthetics are ubiquitous in our environment these days but it seems like a crazy concentration of them. Maybe there are factors in my sampling that I wasn't […]
- by /u/_Rushdog_1234I’m very new to metabolomics, so please bear with me. I’ve recently received some data from a collaboration with another research group at our university, and I need help understanding the zero-imputation process. Here’s a hypothetical example based on my current situation: The study used an untargeted metabolomics approach via LC-MS. I have both lipid-positive and lipid-negative mode data, and we are interested in identifying differences in lipid levels between two conditions. I also have the m/z and retention time (RT) values for the detected metabolites. However, I don’t have access to the LC-MS instrument or any specialised metabolomics software—just […]
- by /u/_Rushdog_1234Our lab group ordered ¹³C-glucose from CK Isotopes in November 2023. It was opened within a month of arrival; some was used for experiments, and the remainder has been stored in a 4°C refrigerator since then. We are now planning to begin more isotope tracing experiments and would like to reuse some of this 13C glucose powder. Does anyone know how long this product remains stable or how its stability is affected over time? Product is: https://isotope.com/minimal-media-reagents/d-glucose-u-13c6-clm-1396-1 It doesn't say on the vial or the website. I have also contacted the company and am currently waiting for a response. Thanks! […]
- hi!! can you give me tips on how can i discuss metabolomics to undergrad students that doesnt know it at all? any analogy or anything that would help them understand. the discussion is focused on ai driven biomarker discovery. i realized that they need to have a brief discussion on metabolomics and bioinformatics too, to understand the discussion. thank you so much!! [link] [comments]
- Hello! (TW: This post reeks of noob) I am an analytical chemistry grad student (first year, expected to graduate in 4), due to my background in pharmacy, I developed an interest in metabolomics and I would love to do my PhD thesis on targeted metabolomics. My advisor is an analytical chemist who doesn't have experience in metabolomics, but he is so supportive and gave me the green light to work on it if I mange to conceptualize a study. And the more I read, the more lost I feel. So, I am here to get help from the pros. Although […]
- Does anyone have experience in extracting metabolites and lipids from serum (human / bovine)? We have some issues with extracting them for Mass Spec analysis. I would be grateful if you could share working protocol if possible. I did run the lipidomics samples a couple of weeks ago. Unfortunately, I didn't really observe anything in them other than the standards that I had spiked in (which looked great, so I am confident the method works well), so I opted to not run the metabolomics as I expect the result will be the same. It seems I am still hitting this […]
- by /u/Bumblebee0000000Hi, I am sorry to bother you. In 5 months I will start a thesis in bioinformatic and metabolomics using R and machine learning. Big problem: I am interested but have no idea where to start studying. Do you know what I should read or videos I could watch to learn more about R (the program I will use), machine learning and R applied to metabolomics? I often feel overwhelmed when I have too many resources to use and I end up being desperate. Thanks in advance submitted by /u/Bumblebee0000000 [link] [comments]
- by /u/QuirkyFlower7244I'm in Metaboanalyst, processing MS peak list data (i.e. the pre-processing step). After the step of matching peaks across samples, peaks were grouped, and if there was more than one peak per group, it was replaced by their sum. My question is, how can one see which peaks (by rt and m/z) were grouped together and replaced by a sum? For example, I had ~12000 features and now it's down to about ~8000. Thank you so much for your insight! submitted by /u/QuirkyFlower7244 [link] [comments]
- by /u/HS-Lala-03Just ran a HUGE experiment with 22 conditions across 2 weeks of quenching, extraction and GC-MS runs of yeast cells. My data looks like absolute s**t. This is so demoralizing and I don't know what to do. Sorry for the post since it's not very scientific, but I'm just tired. submitted by /u/HS-Lala-03 [link] [comments]
- https://preview.redd.it/gyoq7iayyboe1.png?width=271&format=png&auto=webp&s=b4497921eaae300a97caddbb21c8f9b548830abb if you are on Discord open invitation to join our Mass Spec (Multi Omics) group. https://discord.gg/Sm6gWgpsf4 [link] [comments]
- by /u/RadiantNote922Hi there, first time LC-MS work for me! I am trying to compare the metabolite content of a plant grown in four different places. I've got the LC-MS data processed with Compound Discoverer, and at the moment i have a file with thousands of molecules and a dozen of rows, with the compound name, the area of the peak of that molecule in that sample group (average), the ratio between the groups, the ajusted p value, etc… I wanted to ask you, in general how do you analyze the data coming out from compound discovere? For example, i have got […]
- by /u/ChaochicWhat should I consider making the decision to keep only one? https://preview.redd.it/u4b1p54xmcme1.png?width=828&format=png&auto=webp&s=ff7b6ef85bd3be585a753cbfba31b3fb997cff4b submitted by /u/Chaochic [link] [comments]
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