Journal Club

Recommended reads - to catch up with what we work on in the lab

(relevant references to other lab's work are cited/reviewed in these papers)

Metabolomics methods

Red Blood Cell Aging in vivo and in vitro (storage in the blood bank)

Hypoxia, inflammation, Pulmonary Hypertension

Cancer Metabolism

Trauma/Hemorrhagic Shock

 

Protocols

A list of our protocols for metabolomics sample preparation to share with collaborators

Metabolomics sample preparation

*All amounts listed are "per sample" or "per replicate"

Blood processing for Red Blood Cell separation from whole blood for metabolomics analyses (from packed RBCs that have already been leukoreduced by filtration - log4 WBC and log2.5 PLT reduced)

Preparation of cellular samples:

1) Collect 0.1 mL of supernatants and freeze (-80 degree C) immediately, while discarding residual supernatants.

2) Trypsinize cultured cells (~2 x million cells - please provide specific counts as lysis buffer volume is normalized according to cell counts) and spin down in 1.5-2 mL Eppendorf tubes in  cold(4 oC) PBS at 10,000 rpm for 10min at 4 degree C.

3) After removing PBS, immediately freeze cell pellets by flash freezing or storing at -80 degree C.

4) Transport samples to core on dry ice.

 

Shipping instructions:

Samples should be stored in tightly capped tubes and the tubes directly labeled with a distinct and simple number or letter (e.g., 1 through 85 or A through M). We encourage you to include a sample list with more information about replicates and groupings in the box. Please do not parafilm tubes or use sticky labels as these often fall off or move during transit. Please ship samples overnight on dry ice to the address below and email tracking information to your contact person:

D'Alessandro Lab

University of Colorado Denver - Anschutz Medical Campus

12801 E. 17th Ave, Room L18-9118

Aurora, CO 80045

or to 

Biological Mass Spectrometry Facility - Metabolomics

University of Colorado Denver - Anschutz Medical Campus

12801 E. 17th Ave, Room 1303

Aurora, CO 80045

 

Presentations and other Teaching material

From our conference presentations, lab meetings, teaching​ (click on pdf icon to download)

To enjoy these slides, please download the free font Oswald Regular (we really love that here!)

Metabolomics and Proteomics

An introduction to Metabolomics

High-throughput metabolomics

Metabolomics Core at UC Denver

Expected isotopolgue distributions in tracing experiments

Freeze thaw effect on Metabolite levels

Metabolic Tracing Experiments

Overview of Metabolomics and Proteomics

Proteomics services

Metabolomics services

Red Blood Cell aging in vivo and storage lesion

AABB 2017 - Hypoxanthine and PTR

RBC storage and integrated omics

Alternative RBC storage strategies

Hypoxic Metabolic Reprogramming in sickle cell disease and high altitude

RBC Hypoxic metabolic reprogramming

RBC responses to high altitude hypoxia

Scott Murphy Lecture - BEST 2015

EHA 2013 - RBC aging in vivo and in vitro

Anaerobic storage of RBCs

Down Syndrome

RBC metabolism in Down syndrome

RBC metabolism in Down syndrome - Rachel

Hypoxia: Pulmonary hypertension, trauma/hemorrhagic shock and hibernation 

Sleeping squirrel hiking students and trauma patients

miR-124 and pulmonary hypertension

Small molecules, big data and something in between

Other

Love me tender - an omics view on meat tenderization biochemistry

Omics and blood doping

 

©2018 by D'Alessandro Lab