If you were curious about the Wedel et al. presentation on the Snowmass Haplocanthosaurus at the 1st Palaeo Virtual Congress but didn’t attend the event, it is now preserved for posterity and freely available to the world as a PeerJ Preprint (as promised). Here’s the link.

I’ll have much more to say about this going forward, but for now here are slides 20 and 21 on the intervertebral joint spaces. This is obviously just the same vert cloned three times and articulated with itself. With the digital rearticulation of the reconstructed and retrodeformed caudal series still in progress, we cloned caudal 3, the only vertebra that preserves both sets of zygapophyses, to get a rough estimate of the sizes and shapes of the soft tissues that filled the intervertebral spaces and neural canal.

The reconstructed intervertebral discs (in blue) are very crude and diagrammatic. The reason I’m putting these particular slides up is to get the cited references out in the open on the blog, to start correcting the misapprehension that all non-mammalian amniotes have exclusively synovial intervertebral joints (see the discussion in the comments on this post). In the list below I’m including Banerji (1957), which is not cited in the presentation but which I did cite in that comment thread; it’s an important source and at least for now it is a free download. These refs are just the tip of a very big iceberg. One of my goals for 2019 is to do a series of posts reviewing the extensive literature on amphiarthrodial (fibrocartilaginous) intervertebral joints in living lepidosaurs and birds. Stay tuned!

And please go have a look at the presentation if you are at all interested or curious. As we said in the next to last slide, “this research is ongoing, and we welcome your input. If there are facts or hypotheses we haven’t considered but should, please let us know!”

References

Scholastica is a publishing platform that offers support for super-low-cost open-access journals such as Discrete Analysis, led by Tim Gowers. They’re putting together the first Academic-Led Publishing Day on 7 February next year, and as part of the build-up, they kindly invited me to do an interview for them, kicking off their Academic-Led Publishing From the Experts series.

I did tell them that I wasn’t qualified — “I am about as far from an expert as I could possibly be in the field of Academic-led publishing. I’ve never even been an academic editor for a journal, far less started one or run one. All I’ve ever done, really (beyond writing and peer-reviewing articles) is have opinions and write about them.” But they wanted to push ahead anyway, so I was happy to go along with it.

Here’s the interview: enjoy!

 

The opening remarks by the hosts of conferences are usually highly forgettable, a courtesy platform offered to a high-ranking academic who has nothing to say about the conference’s subject. NOT THIS TIME!

This is the opening address of APE 2018, the Academic Publishing in Europe conference. The remarks are by Martin Grötschel, who as well as being president of the host institution, the Berlin Brandenburg Academy of Sciences and Humanities, is a 25-year veteran of open-access campaigning. and a member of the German DEAL negotiating team.

Here are some choice quotes:

1m50s: “I have always been aware of the significant imbalance and the fundamental divisions of the academic publication market. Being in the DEAL negotiation team, this became even more apparent …”

2m04s: “On the side of the scientists there is an atomistic market where, up to now and unfortunately, many of the actors play without having any clue about the economic consequences of their activities.”

2m22s: “In Germany and a few other countries where buyer alliances have been organised, they are, as expected, immediately accused of forming monopolies and they are taken to court — fortunately, without success, and with the result of strengthening the alliances.”

2m38s: “On the publishers’ side there is a very small number of huge publication enterprises with very smart marketing people. They totally dominate the market, produce grotesque profits, and amazingly manage to pretend to be the Good Samaritans of the sciences.”

2m27s: “And there are the tiny [publishers …] tentatively observed by many delegates of the big players, who are letting them play the game, ready to swallow them if an opportunity comes up.”

3m18s: “When you, the small publishers, discuss with the representatives of the big guys, these are most likely very friendly to you. But […] when it comes to discussing system changes, when the arguments get tight, the smiles disappear and the greed begins to gleam.”

3m42s: “You will hear in words, and not implicitly, that the small academic publishers are considered to be just round-off errors, tolerated for another while, irrelevant for the world-wide scientific publishing market, and having no influence at all.”

4m00s: “One big publisher stated: if your country stops subscribing to our journals, science in your country will be set back significantly. I responded […] it is interesting to hear such a threat from a producer of envelopes who does not have any idea of the contents.”

4m39s: “Will the small publishers side with the intentions of the scholars? Or will you try to copy the move towards becoming a packaging industry that exploits the volunteer work of scientists and results financed by public funding?”

5m55: “I do know, though, that the major publishers are verbally agreeing [to low-cost Gold #OpenAccess] , but not acting in this direction all, simply to maintain their huge profit margins.”

6m06s: “In a market economy, no-one can argue against profit maximisation [of barrier-based scholarly publishers]. But one is also allowed to act against it. The danger may be really disruptive, instead of smooth moves in the development of the academic publishing market.”

6:42: “You may not have enjoyed my somewhat unusual words of welcome, but I do hope that you enjoy this year’s APE conference.”

It’s just beautiful to hear someone in such a senior position, given such a platform, using it say so very clearly what we’re all thinking. (And as a side-note: I’m constantly amazed that so many advocates are so clear, emphatic and rhetorically powerful in their second, or sometimes third, language. Humbling.)

As RLUK’s David Prosser noted: “I bet this wasn’t what the conference organisers were expecting. A fabulous, hard-hitting polemic on big publishers #OA.”

 

 


Note. This post is adapted from a thread of tweets that I posted excerpting the video.

Open-access journalist Richard Poynder posted a really good interview today with the Gates Foundation’s Associate Officer of Knowledge & Research Services, Ashley Farley. I feel bad about picking on one fragment of it, but I really can’t let this bit pass:

RP: As you said, Gates-funded research publications must now have a CC BY licence attached. They must also be made OA immediately. Does this imply that the Gates foundation sees no role for green OA? If it does see a role for green OA what is that role?

AF: I wouldn’t say that the foundation doesn’t see value or a role for green open access. However, the policy requires immediate access, reuse and copyright arrangements that green open access does not necessarily provide.

Before I get into this, let me say again that I have enormous admiration for what Ashley Farley and the Gates Foundation are doing for open access, and for open scholarship more widely. But:

The (excellent) Gates policy requires immediate access, reuse and copyright arrangements that gold open access does not necessarily provide, either. It provides them only because the Gates Foundation has quite rightly twisted publishers’ arms, and said you can only have our APCs if you meet our requirements.

And if green open access doesn’t provide immediate access and reuse, then that is because funders have not twisted publishers’ arms to allow this.

It’s perfectly possible to have a Green OA repository in which all the deposited papers are available immediately and licenced using CC By. It’s perfectly possible for a funder, university or other body to have a green OA policy that mandates this.

But it’s true that no-one seems to have a green OA policy that does this.

Why not?

This was an interesting exercise. It was my first time generating a poster to be delivered at a conference since 2006. Scientific communication has evolved a lot in the intervening decade, which spans a full half of my research career to date. So I had a chance to take the principles that I say that I admire and try to put them into practice.

It helped that I wasn’t working alone. Jann and Brian both provided strong, simple images to help tell the story, and Mike and I were batting ideas back and forth, deciding on what we could safely leave out of our posters. Abstracts were the first to go, literature cited and acknowledgments were next. We both had the ambition of cutting the text down to just figure captions. Mike nailed that goal, but my poster ended up being slightly more narrative. I’m cool with that – it’s hardly text-heavy, especially compared with most of my efforts from back when. Check out the text-zilla I presented at SVP back in 2006, which is available on FigShare here. I am happier to see, looking back, that I’d done an almost purely image-and-caption poster, with no abstract and no lit cited, as early as 1999, with Kent Sanders as coauthor and primary art-generator – that one is also on FigShare.

I took 8.5×11 color printouts of both my poster and Mike’s, and we ended up passing out most of them to people as we had conversations about our work. That turned out to be extremely useful – I had a 30-minute conversation about my poster at a coffee break the day before the posters even went up, precisely because I had a copy of it to hand to someone else. Like Mike, I found that presenting a poster resulted in more and better conversations than giving a talk. And it was the most personally relaxing SVPCA I’ve ever been to, because I wasn’t staying up late every night finishing or practicing my talk.

I have a lot of stuff to say about the conference, the field trip, the citability of abstracts and posters (TL;DR: I’m for it), and so on, but unfortunately no time right now. I’m just popping in to get this posted while it’s still fresh. Like Mike’s poster, this one is now published alongside my team’s abstract on PeerJ PrePrints.

I will hopefully have much more to say about the content in the future. This is a project that Jann, Brian, and I first dreamed up over a decade ago, when we were grad students at Berkeley. Mike provided the impetus for us to get it moving again, and kindly stepped aside when I basically hijacked his related but somewhat different take on ontogeny and serial homology. When my fall teaching is over, I’m hoping that the four of us can take all of this, along with additional examples found by Mike that didn’t make it into this presentation, and shape it into a manuscript. I’ll keep you posted on that. In the meantime, the comment field is open. For some related, previously-published posts, see this one for the baby sauropod verts, this one for CM 555, and this one for Plateosaurus.

Flying over Baffin Island on the way home.

And finally, since I didn’t put them into the poster itself, below are the full bibliographic references. Although we didn’t mention it in the poster, the shell apex theory for inferring the larval habits of snails was first articulated by G. Thorson in 1950, which is referenced in full here.

Literature Cited

If you don’t get to give a talk at a meeting, you get bumped down to a poster. That’s what’s happened to Matt, Darren and me at this year’s SVPCA, which is coming up next week. My poster is about a weird specimen that Matt and I have been informally calling “Biconcavoposeidon” (which I remind you is not a formal taxonomic name).

Here it is, for those of you who won’t be at the meeting (or who just want a preview):

But wait — there’s more. The poster is now also formally published (Taylor and Wedel 2017) as part of the PeerJ preprint containing the conference abstract. It has a DOI and everything. I’m happy enough about it that I’m now citing it in my CV.

Do scientific posters usually get published? Well, no. But why not? I can’t offhand think of a single example of a published poster, though there must be some out there. They are, after all, legitimate research artifacts, and typically contain more information than published abstracts. So I’m happy to violate that norm.

Folks: it’s 2017. Publish your posters.

References

  • Taylor, Michael P., and Mathew J. Wedel. 2017. A unique Morrison-Formation sauropod specimen with biconcave dorsal vertebrae. p. 78 in: Abstract Volume: The 65th Symposium on Vertebrate Palaeontology and Comparative Anatomy & The 26th Symposium on Palaeontological Preparation and Conservation. University of Birmingham: 12th–15th September 2017. 79 pp. PeerJ preprint 3144v2. doi:10.7287/peerj.preprints.3144v2/supp-1

Lots of discussion online lately about unpaid peer reviews and whether this indicates a “degraded sense of community” in academia, improper commoditization of the unwritten responsibilities of academics, or a sign that we should rethink incentives in academia. (NB: that’s my galloping sound-bite-ization of those three posts, which you should go read in full.)

Part of this “reviewers don’t get paid” thing is good, because it indicates that academics broadly are waking up to how badly they’ve been had by commercial publishers. It’s part of that necessary anger that Scott Aaronson wrote about back when. But I can also understand why people are pushing back and saying, “Oh, if you don’t review you’re not supporting the academic community that (in part) makes your career possible. We should all pitch in and do the work.” Until recently, there was no way to separate those two strands: in doing peer reviews (and editing, etc.), one was both supporting the community as a good citizen, and also, unavoidably, helping commercial publishers line their pockets. But now that previously single path has bifurcated (no, not that way). Now it’s possible to be a good citizen for the community by editing and reviewing for OA journals, and stick it to the barrier-based publishers by not editing and reviewing for them (here’s how to politely decline, and see more discussion here).

Here’s how jacked the situation is: if you edit or review for a barrier-based publisher whose journals you also subscribe to or otherwise pay for, then in effect you are paying them for the privilege of reviewing. Put like that, it sounds insane. In any normal transaction, I give you X and you give me Y in return, because we’ve jointly agreed that these things are of roughly equal worth. In barrier-based publishing, academics give publishers (1) their papers, which publishers then exert copyright over, (2) their effort as editors and reviewers, and (3) their money, in subscriptions or other access fees, individually or collectively as institutions. And publishers sell the work back to us, retaining the copyright, and reap massive profits. There is no part of that sequence where academics – and indeed humanity at large – are getting the upside of the deal. The publishers are running the table on us, because for a long time, there were no other options. That’s not true anymore.

In his post on community, Zen Faulkes wrote, “I think people are refusing to do reviews in part because they don’t feel connected to the academic community.” Possibly. But maybe people are refusing to do reviews because they’re tired of being had. Has anyone done any work that would allow us to test those hypotheses? If so, I’d love to hear about it in the comments.

TL;DR: The separation of community goals and corporate profits shouldn’t be a fine theoretical point of discussion. It should be what we lead with. Yes, I will support the academic community. No, I won’t donate my time and effort to rapacious barrier-based publishers. It’s possible to achieve both of those things at once. And we should.

“Biconcavoposeidon”

August 15, 2017

Here is a fascinating sequence of five consecutive posterior dorsal vertebra — AMNH FARB 291 from the”Big Bone Room” at the AMNH:

AMNH FARB 291, five consecutive posterior dorsal vertebrae of a probably brachiosaurid sauropod, in right lateral view. The vertebrae are embedded in a plaster block, which has been desaturated in this image.

Matt and I first saw this specimen back in February 2009, when we were mostly there to look at Apatosarusminimus (and then again in 2012). As soon as our eyes lit on it, we couldn’t help but be captivated by its bizarre biconcave centra. We immediately started flippantly referring to it as “Biconcavoposeidon” — the ugliest name we could come up with — and in our subsequent discussions the name has stuck (often abbreviated to “BCP”).

  • Taxonomic note: for avoidance of doubt, “Biconcavoposeidon” is not and will never be a formal taxonomic name, only an informal specimen nickname. If at some future point we conclude that this specimen represents a new taxon, and name it, we will definitely not use the name “Biconcavoposeidon”. If you ever use the name, please do not set it in italics.

As you can see in this front view, the specimen is sheared: the upper part of the vertebrae have been displaced to their left (which is the right as we see it in this image):

AMNH FARB 291, most anterior of five consecutive posterior dorsal vertebrae of a probably brachiosaurid sauropod, in anterior view.

Apart from the shearing, though, and the truncation of the neural spines shortly above the transverse processes, the specimen is in pretty good nick. Crucially, it’s not been “restored” in plaster to conceal what is and is not real bone — unlike many specimens of that era. It came out of the Bone Cabin quarry in 1898, back when scientific information was routinely discarded in order to obtain a more beautiful-looking specimen.

This is the specimen that I’ll be presenting at SVPCA this year — though only as a poster, unfortunately: there’s no talk for me, Matt or Darren this year. We’ve posted our abstract (including the illustration above) to the nascent PeerJ collection for SVPCA 2017, and we’re looking forward to seeing more of the materials from that conference — abstracts, then manuscripts, then papers — appearing in the collection.

So far as we know, there’s no other sauropod specimen with biconcave posterior dorsal vertebrae. (And, no, Amphicoelias is not an exception, despite its name.) But have we missed any?

Excellent news this morning in a press-release from the Journal of Algebraic Combinatorics:

At the end of June 2017, the four editors-in-chief of the Journal of Algebraic Combinatorics informed Springer that they will not renew their contracts, which terminate on 31 December 2017. Nearly all of the editorial board members will also resign, to form the editorial board of a new journal that will be called Algebraic Combinatorics, run according to Fair Open Access Principles.

The part that I like most here is the sense that it’s part of an inevitable and historic shift away from legacy publishers and their subscription paywalls. Here’s what Hugh Thomas, one of JACo’s four Editors-in-Chief, said when asked “why now?”:

There wasn’t a particular crisis. It has been becoming more and more clear that commercial journal publishers are charging high subscription fees and high Article Processing Charges (APCs), profiting from the volunteer labour of the academic community, and adding little value. It is getting easier and easier to automate the things that they once took care of.

This seems exactly right to me. In the past, subscription journals’ flips to open access have mostly been precipitated by some specific event — often, a hefty price rise. But I think we’re now at the point where the inherent advantages of open access are so obvious to editors, and the contribution provided by traditional publishers are so small relative to the costs they impose, that simply walking away is an increasingly attractive option.

It’s not that Springer did something wrong. It’s just that what they’re doing that’s right isn’t enough to justify the damage that their paywalls and other control mechanisms do.

BTW., the flip was advised and facilitated by MathOA, a new organisation that aims to do for mathematics what LingOA has been doing for linguistics. May they both have many more successes!

This week, psychologists are the newest group of scholars to learn that their “publishers” are dedicated to preventing their work from being made public. The American Psychological Association launched a pilot to monitor and seek removal of unauthorized online postings of APA journal articles. What this meant in practice was sending DMCA takedown notices to researchers, telling them to take copies of their own papers off their departmental web-pages. This has raised predictable and justified anger in the community.

Was this legal on APA’s part? Unquestionably, yes. They own the copyright in the articles, and determine how they can be used. But that does not make it acceptable. As Rik Smith-Unna‏ put it this very morning:

Absolutely, academic publishers requiring copyright transfer is always predatory. They don’t say it before submission or explain it clearly. Once the paper is accepted, to say “We’re not publishing unless you assign copyright”, is highly unethical. Months of your time and energy held to ransom.

The APA has since backed down — or “refocused”, as they put it — which is to be welcomed. But it may be too late. They may already have made an important contribution towards radicalising a new segment of the scholarly community. Psychologists are now more aware of how much control they give up to the APA when they publish in their journals.

The thing is, there is simply no need for us authors to put ourselves in this position. As copyright specialist Charles Oppenheim explains:

Journals do not need copyright in articles to publish them. They never have. It’s only tradition that means they keep asking for it. In other areas — novels, for example — it’s completely routine for the author to remain the copyright holder, and for the publisher merely to be given a licence to publish. And this is how it should be for scholarly articles as well.

None of this a new insight, of course. Just last month, Times Higher Education urged its readers that academics ‘should not sign over research copyright to publishers’, citing a report that discusses the matter in detail. And of course we’ve discussed such matter many times here on SV-POW!. Here are a few:

There is absolutely no legitimate reason for journals to take authors’ copyright away, and a journal that exists to serve scholarship will not do so. Which leads me to …

Fair OA Principle 2. Authors of articles in the journal retain copyright.