Avicennia marina

Avicennia

Rhizophora

zooxanthellae

endos~biotic dino~age~ates)

Lomentaria articulata

Porphyra yezoensis

James Whale’s Frankenstein (1931) and Bride of Frankenstein (1935) explored both the hubris of the male scientist described in Mary Shelley’s novel Frankenstein, or the Modern Prometheus (1818) as well as the repressive sexuality of Western culture. Robert Wise’s The Day the Earth Stood Still (1951) advocated for a liberal belief in the collective submission to a technocratic elite.

Desk Set (1957) is a delightful Tracy-Hepburn comedy about automation and information technology. 

In the far future, the [human group] fights a pitched battle against the mighty [alien name] Empire, but deep in the mysterious [region of space], among the ruins of the past, a darker threat looms."

he active participation of RBPs in regulated gene expressionmay be pertinent to an emerging concept of phase separationduring gene expression

Korzybski

Orb has a clear preference for canonical TTTT(A)1–3T

Orb and Orb2 Bind to Linear CPE Motifs.

We identified 3,128 targets for Orb and 2,154 for Orb2

arrier bag rather than weapon of domination,

“Well, they believe that when they have listed all His names — and they reckon that there are about nine billion of them — God’s purpose will be achieved. The human race will have finished what it was created to do, and there won’t be any point in carrying on. Indeed, the very idea is something like blasphemy.”

Elbakyan

, Octavia Butler

We then devised a measure of co-transcriptional splicing for each exon by calculating the difference of intronic read coverage at the 3′ and 5′ ends of the flanking introns

Nascent transcripts at different stages of formation throughout the intron generate a gradient. The fact that this slope spans across individual introns, rather than across the entire transcript, can be explained by co-transcriptional splicing.

Intronic RNAs were abundant in brain tissue, particularly for genes involved in axonal growth and synaptic transmission

Finally, the fact that many IRTs are subject to NMD adds an additional layer of complexity, as the gene may be observed as expressed at a lower level due to the specific degradation of IRTs

s many of these harbour independently transcribed small RNAs, such as snoRNAs or microRNAs (Fig. 3C). If host transcripts are expressed at high levels, and a coverage cut-off is not implemented or used, it might be erroneously concluded that IR affects the coding gene.

implement a coverage cut-off,

only ∼10–25% of sequencing reads in a typical paired-end library span one or more splice junctions

Pitfalls of splice-junction-only approaches to analyse IR from short read sequencing data

Hence, any bioinformatic tool for IR identification and differential analysis which does not include an approach to deal with multi-mapping reads and repetitive sequences in the genome is likely to miss substantial, functionally relevant biological complexity.

filters in place to discard reads that map to more loci than a specific threshold

Long read sequencing captures full intron length but is limited by sequencing depth and accuracy

GSEA

based on the orthology relationship or conservation of their flanking exons

Recently, enrichment of particular RNA binding sites has been observed in sequences of frequently retained introns as well as their flanking exons in human

benchmarking studies of best practices for IR detection, normalisation and quantitation similar to those available for differential gene expression analysis [50,51] need to be carried out.

Both strategies also require a filtering step to segregate IR in differentially expressed genes from IR in non-differentially expressed genes

followed by a robust assessment of whether the read depth is adequate to sample intronic regions. This can be done by subsampling reads and examining splice junction or intron coverage statistics

validation rates for estimates in the levels of IR remain low. For example, one study reported a correlation coefficient (r) of only 0.63 between IR fold-changes determined using RNA-seq and qRT-PCR [19]

IR detection can be confounded by antisense transcription

passing any coverage, splice junction boundary balance or other cut-off.

or uniquely mappable region of the intron

coverage-based approaches

Depending on the statistical tests implemented by each tool, this may lead to biased and unreliable analyses.

improvement in alternative splicing assessment when read depth is increased to 200–300 million reads per sample [19,43].

recommend at least 70 million reads per sample

FPKM of constitutive and alternative splicing event were calculated by sum of the corresponding isoforms (constitutive or alternative splicing event may have multiple isoforms). Then, fisher’s exact test was applied to above FPKM to analyze differential alternative splicing between well-watered and salt-stress treatments

machine learning to derive a computational model that takes as input DNA sequences and applies general rules to predict splicing in human tissues

Cost of Access

An efficient solution to the five-point relative pose problem

our job is to construct a 6-DOF trajectory

Set on a space station in the 23rd century, the show revolves around galactic politics, epic alien battles, and secret agendas from a variety of factions

Once upon a time a magazine editor asked Twitter what to do with a 5-year-old who was despondent over a Mars rover that could never come home. John Rogers responded: “Hang on a minute.” A couple of hours later, he sent this.

Ready Player One Official Trailer #1

Chiang’s story is driven by the obsolescence of the virtual world that is the host platform for the digients, who can continue to exist as social beings only if their software engine is ported to its successor. Unfortunately, their parent corporation has gone bankrupt and so porting the software is not commercially viable. The digients, who are themselves clamoring for individual liberties—you can think of them as woke Tamagotchi—have become what the industry would term abandonware. It is thus left to their small circle of caretakers and enthusiasts to create an incentive for the port—for example, by licensing the digients to a company specializing in artificial sex partners. In all cases, however, the real value of the digients turns out to be their accumulated experiential history as sentient lifeforms.

This is something the digients of Chiang’s story would understand very well, for their existence is continually imperiled by the limited capacity of the virtual worlds they inhabit to render their digital selfhood across changing platforms.

Empire Strikes Back is the rare sequel that manages to outshine its predecessor.

As film genres go, science fiction is often the one that’s hardest for folks to get into. Literal-minded moviegoers often have a hard time with worlds where anything—and everything—is possible and, well, some people just don’t like space.

n 1978, the indisputably most popular science fiction movie of all time — Star Wars — was nominated for Best Picture at the 50th Academy Awards, but it lost to Annie Hall.

Sci-Hub: the debate continues

As part of EFF’s 25th Anniversary celebrations, we are releasing “Pwning Tomorrow: Stories from the Electronic Frontier,” an anthology of speculative fiction from more than 20 authors, including Bruce Sterling, Lauren Beukes, Cory Doctorow, and Charlie Jane Anders. To get the ebook, you can make an optional contribution to support EFF’s work, or you can download it at no cost. We're releasing the ebook under a Creative Commons Attribution-NonCommercial-No Derivatives 4.0 International license, which permits sharing among users. 

…AND I SHOW YOU HOW DEEP THE RABBIT HOLE GOES