Quantum programming with Qiskit
https://youtu.be/aPCZcv-5qfA sentdex
Friday, September 11, 2020
mask rcnn, Okinawa group, github
https://github.com/oist/Usiigaci
Usiigaci: Instance-aware cell tracking in stain-free phase contrast microscopy enabled by machine learning
Thursday, September 10, 2020
Wednesday, September 9, 2020
Chattanooga open data
Chattanooga open data
https://www.chattadata.org/
policing and racial equipty
https://www.chattadata.org/stories/s/26bg-ejs3
Liu et al, Genome biology, 2020, Genome-wide studies reveal the essential and opposite roles of ARID1A in controlling human cardiogenesis and neurogenesis from pluripotent stem cells
in virto human embryonic stem cell study. hESC
ARID1A in H9 hESC were deleted using dual guided-RNA mediated CRISP-Cas9 method.
" Mutations in 4 different SWI/SNF subunits including ARID1A/B were identified in three congenital syndromes that include both neural and cardiac defects: Coffin-Siris syndrome (CSS), Nicolaides- Baraitser syndrome (NCBRS), and ARID1B-related intellectual disability (ID) syndrome Patients with these syndromes show severe intellectual deficits as well as cardiac defects such as atrial/ventricular septal defects, patent ductus
arteriosus (PDA), mitral and pulmonary atresia, aortic stenosis, and single right ventricle. These data indicate that abnormal ARID1A activity can lead to defective formation of both the heart and brain in humans. However, the molecular mechanisms by which ARID1A controls human cardiogenesis and neurogenesis still remain. elusive."
in hESC, Surprisingly, knockout-of-ARID1A in hESCs (ARID1A−/−) led to spontaneous neural. differentiation even under pluripotent stem cell culture conditions. Additionally, under conditions of targeted cardiac differentiation, ARID1A−/− hESCs gave rise to robustly increased numbers of neural cells, including neural stem cells and neurons, whereas cardiac differentiation was significantly suppressed
single-cell RNA reveals spontaneous differentiation neural differentiation in ARIA-/- cells.
So, scRNA data are available for WT and KO in cardiac differential and neural differentiation. Based on my understanding of Liu, GB, 2020, there are WT and ARID1A-/- hESC cells, and the hESC cells are induced for cardiac differentation in CDM3 and neural differentation in N2B27 medium. The scRNA results show ARIDA-/- lead to different clusters of ScRNA in WT and KO in both differentation conditions. So, it seems to me that these data sets can be used to contruct weight single-cell gene network to study network control.
The noise levels seem to be good testing data sets on noises and weight in controllability analysis.
https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-02082-4
Tuesday, September 8, 2020
Shor's factorizing quantum computing algorithm
Shor's factorizing quantum computing algorithm
https://en.wikipedia.org/wiki/Shor%27s_algorithm
A good video: https://youtu.be/lvTqbM5Dq4Q
Shor's video (confusing) https://youtu.be/hOlOY7NyMfs
IBM https://youtu.be/yy6TV9Dntlw
Shor code, quantaum error correction
https://en.wikipedia.org/wiki/Quantum_error_correction#The_Shor_code
Monday, September 7, 2020
student created videos
Learning through videos involved trials and errors, lessons and failure.
https://www.edutopia.org/article/student-created-videos-classroom
making thinking visible
visible learning (this is different from my SLVideo concept).
Friday, September 4, 2020
Thursday, September 3, 2020
yeast aging, somatic mutation, Dr. Dang
Dr. Dang Modulus aging model discussion
DNA double strand break. Increased in old cells. Gamma H2A, phophlylation. A double strand breaker marker. Conserved in mammalian cells. It does mark single strand break.
https://www.nature.com/articles/leu20106#:~:text=Phosphorylation%20of%20the%20Ser%2D139,DNA%20damage%20initiation%20and%20resolution.
Yeast only has H2A (not H2AX).
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3889172/#:~:text=In%20Saccharomyces%20cerevisiae%2C%20histone%20H2A,about%2050%20kb%20in%20yeast).
Mitosis crisis, short lived. Otherwise, long-lived. G1-death long0-lived. G2-death short lived.
SIR2-OE give third mode.
Rapamycin can be absolved by microfluidic device matrix, so it has been studied by microfluidics, according to Dang's conversation with N Hao
TOR1Delta and SIR2-OE are additive in RLS, based on Dang’s own data. Hong needs to check Kaberlein lab data sets.
Wednesday, September 2, 2020
Tuesday, September 1, 2020
Subscribe to:
Posts (Atom)