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Articles by Benjamin Fair
Genetic and functional analysis of unproductive splicing using LeafCutter2
Abstract Alternative splicing commonly generates unproductive mRNA transcripts that harbor premature termination codons, leading to their degradation by nonsense-mediated decay (NMD). These events reduce overall protein expression levels of affected genes, potentially contributing to gene regulation and disease mechanisms. Here, we present LeafCutter2, which enables identification and quantification of unproductive splicing from short-read RNA-seq data.
Global impact of unproductive splicing on human gene expression - Nature Genetics
Abstract Alternative splicing (AS) in human genes is widely viewed as a mechanism for enhancing proteomic diversity. AS can also impact gene expression levels without increasing protein diversity by producing ‘unproductive’ transcripts that are targeted for rapid degradation by nonsense-mediated decay (NMD). However, the relative importance of this regulatory mechanism remains underexplored.
Unveiling the Next Wave: Picks 11-20 in the 2024 NFL Draft 🏈
As the NFL draft narrative unfolds, we shift our focus to the next set of pivotal picks, exploring how each player aligns with the unique needs and aspirations of their respective teams. If you haven’t seen my picks 1 — 10, you can check them out here: https://medium.com/the-lyons-den/unveiling-the-potential-top-10-picks-of-the-2024-nfl-draft-0f0501249a07 Let’s dive into the profiles of players earmarked for selections 11 through 20. 11.
Cinematic Excellence Unmasked: Navigating the 96th Academy Awards Drama
As the 96th Academy Awards approach, the late-night TV host, Jimmy Kimmel, is back at the helm for his fourth hosting gig of the award show. As we brace for the cinematic extravaganza of the Oscars, known for its unexpected turns, this year, the drama has already begun to unfold even before the curtains rise. Two notable snubs have already taken center stage, adding an early layer of unpredictability to the anticipation.
Unveiling the Potential Top 10 Picks of the 2024 NFL Draft
Unveiling the Potential Top 10 Picks of the 2024 NFL Draft Sports and Entertainment Writer Ben Fair takes a look at the best fits for the NFL franchises drafting in the Top 10 Picks of the 2024 NFL Draft. As the NFL draft looms on the horizon, the anticipation grows for the potential game-changing selections that could shape the destiny of ten lucky players and the teams they are destined to join.
Rising Above the Beat: Navigating Fame and Retreat in ‘Down With the King’
Rising Above the Beat: Navigating Fame and Retreat in ‘Down With the King’ “Down With the King” presents a unique exploration of the Great Resignation, using the character Money Merc, portrayed with sensitivity by real-life rapper Freddie Gibbs. The film delves into Merc’s struggle with career exhaustion, offering a refreshing take on the pressures of fame. One of the film’s commendable aspects is the compelling story that unfolds as Merc grapples with his personal and professional dilemmas.
Nick Saban: A Legend in College Football
Nick Saban’s impact on college football is unparalleled, solidifying his status as the greatest coach in the sport’s history. With a career marked by a relentless pursuit of excellence, unparalleled success, and a profound influence on players and fans alike, Saban’s legacy is indelibly woven into the fabric of college football. One of Saban’s key strengths is his extraordinary ability to motivate players.
National Championship Game Recap: Michigan Triumphs over Washington
Right from the opening kickoff, Michigan set the tone, marching down the field with precision and determination. Led by quarterback JJ McCarthy, although not delivering an overwhelming performance, made crucial plays when it mattered most. Their ground game was simply unstoppable, accumulating more yards rushing than Washington’s total offensive output.
“Defensive Showdowns and Offensive Brilliance: A Tale of Rose Bowl and Sugar Bowl”
In a highly anticipated clash between college football powerhouses, the Alabama Crimson Tide led by Head Coach Nick Saban, faced off against the Michigan Wolverines led by Head Coach Jim Harbaugh in the Rose Bowl, showcasing moments of defensive brilliance amidst offensive struggles. From the beginning, both offenses struggled to find their rhythm.
“Unveiling the Masterpieces: The 12 Must-See Films of 2023"
“Spider-Man Across the Universe,” embarks on a thrilling adventure with Miles Morales traversing the multiverse alongside a diverse team of Spider-People. When confronted with a formidable adversary, Miles is pushed to redefine his understanding of heroism and grapples with the consequences of altering the established canon events across multiple realities.
The Clash of Titans Unfolds in the College Football Playoff
With the College Football Playoff looming, the anticipation reaches a fever pitch, setting the stage for a spectacle that will reverberate through the annals of college football history. Among the buzz and excitement, an unexpected twist emerges: the undefeated Florida State University (FSU), champions of ACC, stand on the outside looking in despite their flawless record and an emphatic victory in their conference championship game.
The Kang Enigma: Marvel’s Strategic Shift Post-Jonathan Majors’ Departure
Marvel Studios faces a critical turning point in the wake of parting ways with Jonathan Majors, after the outcome of his court hearing. Renowned for his portrayal of Kang the Conqueror and Damian Anderson. This departure compounds the studio’s existing challenges — spiraling box office numbers, internal reorganization, and an evolving strategy amid an increasingly competitive landscape. Kang the Conqueror emerges as a multifaceted and commanding figure within the Marvel Cinematic Universe.
College Football’s Transfer Portal: Shaping the Future of Top Teams and Talent Reshuffles
Louisville welcomes standout WR Ja’Corey Brooks from Alabama, reinforcing an already promising set of transfers. Joined by WR Caullin Lacy and RB Don Chaney, Brooks and Lacy are set to form a formidable receiving duo in the country, amplifying Louisville’s offensive capabilities. The addition of QB Tyler Shough from Texas Tech further enhances the team’s firepower, setting the stage for an exciting season ahead.
“Leave the World Behind”: A Gripping Reflection of Our Vulnerable Reality
Netflix’s latest psychological thriller, “Leave the World Behind,” has surged to the platform’s top spot since its debut on December 8, captivating audiences with a narrative that cuts deep into our reliance on technology and the potential consequences of its sudden absence. Directed by Sam Esmail and featuring a stellar cast led by Julia Roberts, Mahershala Ali, and Ethan Hawke, the film unravels a tale of escalating chaos triggered by a technological breakdown.
Celebrating Excellence: 2023 CFB Season’s Outstanding Award Winners
Jayden Daniels, the LSU quarterback, illuminated the field with a brilliance that defined an era. His name echoed across the college football landscape as he claimed the illustrious Heisman Trophy, showcasing a season highlighted by spectacular results: 4,946 total yards, 50 total touchdowns, and a mere 4 interceptions — reminiscent of Joe Burrow’s legendary season, minus the National Championship.
Discovering Redemption: Unraveling the Tale of ‘Eight Crazy Nights’
In the small town of Dukesberry, New Hampshire, you are introduced to Davey Stone, voiced by and bearing resemblance to Adam Sandler. The 33-year-old alcoholic troublemaker with a lengthy criminal record finds himself in a whirlwind of events, starting with an arrest at Mr. Chang’s Chinese restaurant and culminating in an act that involves destroying a Menorah/Santa ice sculpture while attempting to evade capture.
Unprecedented Success, Unfulfilled Dreams: FSU’s Unforgettable 2023-24 Football Season
The Florida State Seminoles embarked on a journey in the 2023–24 season that was as thrilling as it was heartbreaking. Riding the wave of an undefeated run, claiming the ACC Championship, and yet finding themselves omitted from the coveted CFB playoff. The Seminoles’ journey was peppered with monumental victories that underscored their strength but also raised questions about their strength of schedule (SOS). The season opener against LSU set the tone for FSU’s ambitions.
The Ultimate Festive Film Marathon: Top 25 Christmas Movies to Usher in the Holiday Cheer
The Ultimate Festive Film Marathon: Top 25 Christmas Movies to Usher in the Holiday Cheer As the festive season graces us with its shimmering glow and cozy embraces, there’s something magical about the enchanting tales spun by Christmas movies. Within this list of the Top 25 Christmas Movies, we uncover stories that have become timeless treasures, weaving together laughter, love, and the essence of the holidays.
Power Five Championship Matchups Set to Shake...
Clash of Titans: SEC and BIG10 Showdowns The conclusion of the college football regular season left fans in awe, having witnessed a spectrum of gripping moments and games teetering on the edge. As the dust has settled, the impending Power Five Championship matchups promise to be the climax of this rollercoaster journey. In the SEC showdown, Alabama faces off against UGA in a clash not only between two powerhouse teams but also between two exceptional head coaches in Nick Saban and Kirby Smart.
Quarterbacks' Journey to Heisman Glory
Michael Penix Jr: Penix's path was marked by injury-riddled seasons at Indiana. Despite flashes of brilliance, injuries continually derailed his momentum. It was at Washington that Penix found a platform to showcase his true potential. His unorthodox throwing mechanics became his signature, yet it was his mental resilience that truly shone.
Unveiling the 2023-2024 College Football Playoff Contenders
Sports and Entertainment Writer Ben Fair gives a detailed look at the path for each contending team's College Football Playoff selection. The 2023-2024 College Football Season marks a pivotal moment in the sport's history as it ushers in the final year of the four-team playoff era, a system that has defined college football for the past decade.
Global impact of aberrant splicing on human gene expression levels
Abstract Alternative splicing (AS) is pervasive in human genes, yet the specific function of most AS events remains unknown. It is widely assumed that the primary function of AS is to diversify the proteome, however AS can also influence gene expression levels by producing transcripts rapidly degraded by nonsense-mediated decay (NMD).
Cryptic splicing mediates genetic and therapeutic perturbation of human gene expression levels
Abstract Nonsense-mediated decay (NMD) is an RNA surveillance mechanism that degrades transcripts containing premature termination codons. Alternative splicing (AS) is known to affect the expression levels of some human genes by producing transcripts rapidly degraded by NMD. However, the importance of AS in determining expression levels of most genes is unclear because rapidly degraded mRNA isoforms are difficult to quantify.
Profiling lariat intermediates reveals genetic determinants of early and late co-transcriptional splicing
54 Lundberg S.M. Lee S.-I. A unified approach to interpreting model predictions. in: Advances in Neural Information Processing Systems. 30. Curran Associates, Inc., : 4765-4774 Briefly, for each prediction of a % splicing order for an intron pair, SHAP determines the impact of each feature by comparing the prediction of a % splicing order based on the feature value of the intron pair to the prediction based on the average feature value of all intron pairs.
The impact of cell type and context-dependent regulatory variants on human immune traits
Genome Biology volume 22, Article number: 122 (2021) Cite this article Abstract Background The vast majority of trait-associated variants identified using genome-wide association studies (GWAS) are noncoding, and therefore assumed to impact gene regulation. However, the majority of trait-associated loci are unexplained by regulatory quantitative trait loci (QTLs). Results We perform a comprehensive characterization of the putative mechanisms by which GWAS loci impact human immune traits.
A Commander's uncommon journey
Capt. Sulaiman Bah receives the guidon for the last time as the outgoing commander during a change of command ceremony at Norwalk Armory in Norwalk, Ohio Jan. 11, 2020. (Ohio Army National Guard photo by Sgt. Christine Lorenz) This report originally published at dvidshub.net (DVIDS) and is reprinted in accordance with DVIDS guidelines and copyright guidance. The 945th Engineer Company has lost a great member from its ranks. During the change of command ceremony Jan. 11, 2020, Capt.
945th Engineer Company introduces first female commander
Capt. Jill Hoffman addresses the Soldiers of the 945th Engineer Company for the first time as commander during a change of command ceremony at Norwalk Armory in Norwalk, Ohio Jan. 11, 2020. Hoffman has served in the unit as a platoon leader prior to taking this command. (Ohio National Guard photo by Sgt. Christine Lorenz) This report originally published at dvidshub.net (DVIDS) and is reprinted in accordance with DVIDS guidelines and copyright guidance.
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