outer product of two vectors

what is outer and inner product of two vectors

https://en.wikipedia.org/wiki/Outer_product

https://www.sciencemag.org/news/2020/05/defective-immune-cells-could-make-us-old?utm_campaign=NewsfromScience&utm_source=JHubbard&utm_medium=Twitter

Defective immune cells could make us old

A Proof from 'The Book', Huang, Emory

A Proof from 'The Book'

https://cacm.acm.org/magazines/2020/5/244324-a-proof-from-the-book/fulltext

https://www.youtube.com/watch?v=hm9oOv-PZ6Q

By the way Huang assigned ‘-1’ for adjacency matrix, which puzzles me. 

What is exciting is that he has a theorem says that: 

    Square root of the largest degree < the largest eigen value of an Adjacency matrix < largest degree. (see a picture below)

Huang used -1 in the adjacency matrix, not the Laplacian matrix. He assumes positive and negative interactions in his graphs

 

Question: normally, zero means no interaction? 

NEON teaching modules

https://www.neonscience.org/resources/teaching-modules

flickr account
https://www.flickr.com/photos/neonsciencedata/sets/72157711338335388/

Normalized difference vegetation index (NDVI)

NDVI can identify vegetation

https://en.wikipedia.org/wiki/Normalized_difference_vegetation_index

(-1, 1) range
0.3~0.4 vegetation

eddy covariance

eddy covariance
https://en.wikipedia.org/wiki/Eddy_covariance


https://www.neonscience.org/eddy-data-intro

PenoCams

NEON

https://www.neonscience.org/data-collection/phenocams

eCognition

transform geo spatial data into information
https://geospatial.trimble.com/products-and-solutions/ecognition

UAB bioinformatics

COVID-19 Biomedical Data Science

http://ubrite.informatics.uab.edu/covid19/index.php/data-sets/

http://ubrite.informatics.uab.edu/covid19/index.php/ten-list-series/

COVID19-hg GWAS meta-analyses round 2

COVID19-hg GWAS meta-analyses round 2

https://www.covid19hg.org/results/

from alignment to snp

https://www.researchgate.net/post/Does_anyone_know_a_software_for_SNPs_analysis_from_FASTA_sequences

*** Copenicus climate ERA5 renalaysis

ERA5 renalaysis 2m temperature

https://cds.climate.copernicus.eu/cdsapp#!/dataset/reanalysis-era5-single-levels?tab=form


our requests

• All
• Queued
• In progress
• Failed
• Unavailable
• Complete

Auto refreshed : 14:53:10

	Product	Submission date	End date	Duration	Size	Status
	ERA5 hourly data on single levels from 1979 to present	2020-05-11 14:47:06	2020-05-11 14:48:57	0:01:50	2.5 GB	Download
	ERA5 hourly data on single levels from 1979 to present	2020-05-11 14:44:49	2020-05-11 14:44:49	0:00:00	6.3 GB	Download

Footer menu

*** covid19 machine learing

Youyang Gu

claim to be more accurate than Chris Murray model

https://covid19-projections.com/


https://github.com/youyanggu/covid19_projections

pandemic flu data, Reich lab

Reich lab,

https://reichlab.io/2018/09/17/pandemic-flu-data.html

flu
https://www.tycho.pitt.edu/data/#datasets

Project Tycho
https://www.tycho.pitt.edu/

IHME covid19 model

What temperature data do you use in your models?

We use daily data on temperature (in Kelvin) from the Physical Sciences Laboratory NCEP/NCAR Reanalysis dataset.

http://www.healthdata.org/covid/faqs#differences%20in%20modeling

What population density data do you use in your models?

We use gridded population count estimates for 2020 at the 1 x 1 kilometer (km) level from WorldPop.

covid19 machine learning

https://www.medrxiv.org/content/10.1101/2020.04.03.20052084v1


https://www.datarevenue.com/en-blog/machine-learning-covid-19


https://scitechdaily.com/unexpected-scientific-insights-into-covid-19-from-ai-machine-learning-tool/

https://techcrunch.com/2020/04/16/new-mit-machine-learning-model-shows-relaxing-quarantine-rules-will-spike-covid-19-cases/

https://cset.georgetown.edu/covid-19-open-research-dataset-cord-19/

NASA GRIB weather data

Dr. Hossain and I ZOOMed briefly today. Dr. Hossain said that GRIB is the new NASA standard, so we should use PYGRIB https://jswhit.github.io/pygrib/docs/. 

Dr. Hossain suggest this data set

https://disc.gsfc.nasa.gov/datasets/NLDAS_NOAH0125_H_002/summary?keywords=NLDAS_NOAH0125_H

You will need to register at this NASA site to download these data, 

seasonality of covid19

 temperature ~ R0 by location

last year temperature -> R0 prediction -> seanonality mode of covid19

convert multiple seq alignment into snp

SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5320690/

covid 19 funding

COVID-19 Funding Opportunities

Information about funding opportunities related to the novel coronavirus (COVID-19) will be added to this page as they become available. Please contact Kimberly Eck (avcrd@utk.edu) for more information or to report additional opportunities.

Deadline	Title	Funding Agency	More Information
Rolling	Fast-Track Grant Response: COVID-19	Adira Foundation
June 2020 (anticipated)	NOI: New Funding Opporutnity Announcement to Support Novel, High-Impact Studies Evaluating Health System and Healthcare Professional Responsivenss to COVID-19	Agency for Healthcare Research and Quality
mid-May (anticipated)	NOI: Revision Supplements to Existing AHRQ Grants and Cooperative Agreements to Addres Health System Responsiveness to COVID-19	Agency for Healthcare Research and Quality
6/30/20	AWS Diagnostic Development Initiative (DDI)	Amazon Web Services
Continuous submission	Artist Relief	Americans for the Arts
5/10/20	COVID-19 Pivot Grant	Autism Science Foundation
10/31/20	BAA; No limit to funding	BARDA	Highly recommended to schedule a TechWatch to brief BARDA POs
Continuous Submission	Coronavirus Local Response Initiative	Bloomberg Philanthropies
6/5/20	Innovation Fund	Booz Allen Foundation	Please contact Jill Passano at jpassano@utfi.org if you are interested in applying.
5/12/20	Open Call: Covid-19 Fast Track	Defence and Security Accelerator (UK)
5/15/20	Newton Award for Transformative Ideas during the COVID-19 Pandemic	DOD
5/28/20	Investigator-Initiated Research Award for Emerging Viral Diseases and Respiratory Health	DOD
5/28/20	Technology/Therapeutic Development Award for Emerging Viral Diseases and Respiratory Health	DOD
Continuous Submission	Dear Colleague Letter–Coronavirus Disease 2019 (COVID-19)	DOE
Rolling	Invitation for COVID-19 Scientific Questions	DOE
Continuous Submission	The COVID-19 High Performance Computing Consortium	DOE
Rapid	COVID-19 Research at the Spallation Neutron Source and High Flux Isotope Reactor	DOE
None Posted	Facebook Small Business Grants Program	Facebook For Business
Continuous Submission	Fast Funding for COVID-19 Science	Fast Grants
Rolling	COVID-19 Telehealth Program	FCC
8/31/20	Emergency Grants	Foundation for Contemporary Arts
10/31/20	Biomedical Advanced Research and Development Authority (BARDA) Broad Agency Announcement (BAA)	HHS	BARDA BAA Open ONLY to COVID-19 related projects. Please see full call for Techical Descriptions and agency personnel points of contact
5/10/20	Emergency Grants to Address Mental and Substance Use Disorders During COVID-19	HHS
Open	COVID-19 Open Research Dataset Challenge (CORD-19)	Kaggle
Pending	OTA (Department of Defense)	MCDC
5/31/20	Medical CBRN Defense Consortium (MCDC) Other Transaction Agreement (OTA) Request for Information (RFI) – CoV Pandemic Response	Medical CBRN Defense Consortium (MCDC)
6/18/20	Health Security and Pandemics Challenge	MIT Solve
Rolling	COVID-19 Solutions Fund	Mozilla Open Source Support Program (MOSS)
Pending	OTA (Department of Defense); $40–60 million	MTEC
Rolling	COVID-19 Emergency Fund for Journalists	National Geographic Society
5/20/20 [Optional][LOI/Pre-App]	RFA-AI-20-028 — Partnerships for Countermeasures against Select Pathogens (R01 Clinical Trials Not Allowed)	NIH
4/1/21	NOSI regarding the Availability of Administrative Supplements and Urgent Competitive Revisions for Research on the 2019 Novel Coronavirus and the Behavioral and Social Sciences	NIH / OBSSR
4/15/21	NOSI: Availability of Urgent Competitive Revisions and Administrative Supplements For Research on Biological Effects of the 2019 Novel Coronavirus on the Nervous System	NIH / NINDS
6/17/20	NOSI: Data Driven Research on Coronavirus Disease 2019 (COVID-19) (R21)	NIH / NLM
10/6/20	NOSI: Availability of Emergency Competitive Revisions on Coronavirus Disease 2019 (COVID-19) for Currently Active NHLBI Phase I-III Clinical Trials	NIH / NHLBI
4/16/21	NOSI: Availability of Administrative Supplements and Competitive Revision Supplements on Coronavirus Disease 2019 (COVID-19) within the Mission of NIAAA	NIH / NIAAA
4/16/21	NOSI regarding the Availability of Administrative Supplements and Urgent Competitive Revisions for Mental Health Research on the 2019 Novel Coronavirus	NIH / NIMH
11/11/20	NOSI: Availability of Emergency Competitive Revisions and Administrative Supplements to Clinical and Translational Science Award (CTSA) Program Awards to Address 2019 Novel Coronavirus Disease (COVID-19) Public Health Needs	NIH / NCATS
5/6/20	NOSI: Urgent Competitive Revisions to Accelerate Research on the Development of Predictive Models of the Spread of SARS-CoV-2 and Outcomes of Potential Public Health Interventions on COVID-19	NIH / NIGMS
Rolling	Emergency Awards: Rapid Investigation of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) and Coronavirus Disease 2019 (COVID-19) (R21 Clinical Trial Not Allowed)	NIH / NIAID
Rolling	Emergency Awards: Rapid Investigation of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) and Coronavirus Disease 2019 (COVID-19) (R01 Clinical Trial Not Allowed)	NIH / NIAID
6/20/20	NOSI: Availability of Emergency Competitive Revisions for Research on Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) and Coronavirus Disease 2019 (COVID-19)	NIH / Common Fund
5/1/21	NOSI: Competitive and Administrative Supplements for the Impact of COVID-19 Outbreak on Minority Health and Health Disparities	NIH / NIMHD
6/16/20	Clinical Trial Planning: Therapeutic/Indication Pairing Strategies (U34) (Clinical Trial Not Allowed)	NIH
5/4/21	NOSI: NIEHS Support for Understanding the Impact of Environmental Exposures on Coronavirus Disease 2019 (COVID-19)	NIH / NIEHS
3/31/21	NOSI: Development of Biomedical Technologies for Coronavirus Disease 2019 (COVID-19)	NIH / NIBIB
6/2/20	NOSI: Availability of Urgent Competitive Revision Supplements on Coronavirus Disease 2019 (COVID-19) within the Mission of NIDDK	NIH / NIDDK
2/5/21	NOSI regarding the Availability of Urgent Competitive Revisions for Research on Coronavirus Disease 2019 (COVID-19) and the Causative Virus SARS-CoV-2	NIH / NIGMS
3/25/21	NOSI regarding the Availability of Emergency Competitive Revisions for Research on Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) and Coronavirus Disease 2019 (COVID-19)	NIH / NIAID
6/2/20	NOSI regarding the Availability of Administrative Supplements for Research on Coronavirus Disease 2019 (COVID-19)	NIH / NLM
10/5/20	NOSI: Availability of Administrative Supplements and Revision Supplements on Coronavirus Disease 2019 (COVID-19)	NIH / NHLBI
Check with PO	Administrative Supplements to Existing NIH Grants and Cooperative Agreements; No limit to funding	NIH
6/29/20	Partnerships for Countermeasures against Select Pathogens (R01 Clinical Trials Not Allowed); $10 million	NIH
3/31/21	NOSI regarding the Availability of Administrative Supplements and Urgent Competitive Revisions for Research on the 2019 Novel Coronavirus	NIH / NIDA
5/1/21	NOSI: NIA Availability of Administrative Supplements and Revision Supplements on Coronavirus Disease 2019 (COVID-19)	NIH / NIA
Varies	NOSI: Repurposing Existing Therapeutics to Address the 2019 Novel Coronavirus Disease (COVID-19)	NIH / NCATS
10/6/20	NOSI: Availability of Administrative Supplements and Urgent Competitive Revisions for Research on Stress Management in Relation to Coronavirus Disease 2019 (COVID-19)	NIH / NCCIH
Varies	NOSI: Clinical and Translational Science Award (CTSA) Program Applications to Address 2019 Novel Coronavirus (COVID-19) Public Heath Need	NIH
6/2/20	NOSI regarding the Availability of Urgent Competitive Revisions and Administrative Supplements for Research on Coronavirus Disease 2019 (COVID-19)	NIH / NCATS
6/26/20	NOSI: National Cancer Institute Announcement Regarding Availability of Urgent Competitive Revision and Administrative Supplements on Coronavirus Disease 2019 (COVID-19)	NIH / NCI
4/5/21	NOSI: Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) and Coronavirus Disease 2019 (COVID-19)	NIH / NIAID
Continuous Submission	Administrative Supplements to Existing NIH Grants and Cooperative Agreements (Parent Admin Supp Clinical Trial Optional)	NIH/DHHS
Rapid Proposals	DCL on the Coronavirus Disease 2019 (COVID-19)	NSF	Please contact relevant program officer, or, rapid-covid19@nsf.gov.
Rapid Proposals	DCL: Provisioning Advanced Cyberinfrastructure to Further Research on the Coronavirus Disease 2019 (COVID-19)	NSF	Please contact relevant program officer, or, rapid-covid19@nsf.gov.
6/4/20	DCL: Request for SBIR/STTR Phase I Proposals Addressing COVID-19	NSF
N/A	Administrative Relief for Recipients and Applicants of Federal Financial Assistance Directly Impacted by the Novel Coronavirus (COVID-19) due to Loss of Operations	OMB
N/A	Call to Action to the Tech Community on New Machine Readable COVID-19 Dataset	Office of Science and Technology Policy
Continuous Submission	COVID-19 Funding	Phoenixville Community Health Foundation
5/21/20	Research Grant Program	Russell Sage Foundation	Please contact Jill Passano at jpassano@utfi.org if you are interested in applying.
6/8/20	Research Grants on Education: COVID-19 Related Special Grant Cycle	Spencer Foundation	Please contact Jill Passano at jpassano@utfi.org if you are interested in applying.
9/1/20	Health Equity Breakthrough Team Research Grant Program	Stand Up to Cancer
Continuous Submission	Capital Region Community COVID-19 Response Fund	United Way of the Greater Capital Region