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<p>This article is an overview of the RNA lab process.</p> <p><span style="text-decoration: line-through;">For the lab FAQ, click [http://eterna.cmu.edu/htmls/lab_manual.html?pagedata=LabManual here]</span> (broken link)</p> <p>Labs are type of puzzle in EteRNA where player solutions are [[Synthesis|synthesized]] and scored on their ability to fold properly. In each lab, players vote on their peers' designs to determine which are synthesized.</p> <p>A player must complete the progression puzzles to submit and vote on lab designs.</p> <p> </p> <h2>Introduction</h2> <p>Lab Steps Overview:</p> <ol> <li><span style="font-size: small;"><strong>[[Analysis]] -</strong> The lab archive is a treasure trove of data on what RNA designs folded successfully. Review successful designs to find winning strategies that get you more points!</span></li> <li><span style="font-size: small;"><strong>Design RNA - </strong>In lab puzzles, players are presented with a [[target structure]] which must be solved by making your own RNA designs.</span></li> <li><span style="font-size: small;"><strong>Scheduled Rounds - </strong>Each player may submit 3 lab designs and 3 votes per scheduled round.</span></li> <li><span style="font-size: small;"><strong>Submission & Voting - </strong>Once submitted, the player's designs are reviewed by other players, and votes are placed.</span></li> <li><span style="font-size: small;"><strong>Laboratory Synthesizing - </strong>The EteRNA team of scientists at Stanford's Das Lab then synthesizes the most popular design in a real laboratory.</span></li> <li><span style="font-size: small;"><strong>Design Scoring - </strong>Each design is awarded a score based on how well it folded to match its intended structure.</span></li> <li><span style="font-size: small;"><strong>Player Rewards - </strong>Points are rewarded according to the success demonstrated in the lab.</span></li> </ol> <p> </p> <h2>Lab Steps Explanation</h2> <h3>[[Analysis]]</h3> <p>You will have the best chance at success if you learn from what has already been successful. Look at past labs, and find a similarly shaped RNA design that scored above 90 - open it up, and take a look at what bases were used where.</p> <p>Can you see any winning patterns? Try them out! Of course, you can try new methods too, but if you're just starting out with labs and wondering how to get a good score, this is a great way to learn.</p> <h4>Types of Labs</h4> <ol> <li><a href="http://eterna.cmu.edu/web/lab/3376059/">Classic Eterna</a> - Early labs without barcodes</li> <li><a href="http://eterna.cmu.edu/web/lab/3376076/">FMN Aptamers</a> - Early FMN aptamer labs</li> <li><a href="http://eterna.cmu.edu/web/lab/3376077/">Player Projects</a> - Cloud lab beta</li> <li><a href="http://eterna.cmu.edu/web/lab/3376078/">Switches</a> - Early switch labs</li> <li><a href="http://eterna.cmu.edu/web/labs/past/">Cloud Labs</a> - <span id="docs-internal-guid-ce98d1fd-eca6-41d2-e6ca-7e5c06a53503">All labs with barcodes - pretty much the whole archive except the last pages.</span></li> </ol> <p> </p> <h3>Design RNA</h3> <p>Once you have reviewed past lab data for successful designs, you are ready to design your very own RNA using solid strategies! You can also try new strategies, to gain insight into what does and does not work for a given type of RNA.</p> <p>Previous labs have focused exclusively on satisfying a secondary structure, with many the target structures synthesized designed by players. Recently, EteRNA has moved to the design of [[aptamer]]s and [[riboswitch]]es.<br /><br /></p> <h3>Scheduled Rounds</h3> <p>Labs are organized and scheduled into rounds, with new rounds beginning every one to three weeks. A lab may continue for several rounds until a winner is found. Though synthesis and voting has stopped on old labs, players may continue to review old lab data and solve old lab puzzles.</p> <p> </p> <h3>Submission & Voting</h3> <p>A player may submit 3 sequences and vote on 8 sequences per round. Sequences that were not synthesized in previous rounds may be resubmitted. Players may vote on their own designs, but may only vote once on a given sequence.</p> <p> </p> <h3>Laboratory Synthesizing</h3> <p>The EteRNA team of scientists at Stanford's Das Lab then synthesizes the most popular design in a real laboratory. They perform science experiments in a real laboratory to determine our RNA designs' secondary structure and other chemical properties. This is where the real science happens!</p> <p>This key step transforms our imagination from computer modelled RNA designs into real world research, so that we can analyze it and collect data. </p> <p> </p> <h3>Design Scoring</h3> <p><span>Lab designs are analyzed after synthesis, and scored on a scale of 0-100 based on how well they satisfy the target structure. Scores of of 94 or higher are considered winning. A player's synthesized designs and their scores are visible on his or her [[player profile]]. </span></p> <p><span>A synthesized design may be viewed via "Review Submitted Designs" and a representation of the </span><a title="SHAPE" href="/wiki/index.php5/SHAPE">SHAPE</a> <span>data may be viewed via "Color sequences based on experimental data" in addition to base colors as in the game. </span></p> <p><span>A colorized graduated scale representing the </span><a title="SHAPE" href="/wiki/index.php5/SHAPE">SHAPE</a> <span>data for each base may be viewed by turning on the game option: "Use continuous colors for the exp. data".</span></p> <p><span>These design results are important, since they help us understand what worked and what did not work, so that we can make even better designs on the next round. This is why reviewing successful designs from past labs ( step 1 ) <em>before</em> designing your RNA ( step 2 ) is a great strategy for improving your score!<br /></span></p> <p> </p> <h3>Player Rewards</h3> <p>Players are awarded points for their submissions and votes, regardless of whether the sequences designed and voted on are synthesized.</p> <p>For designs that are synthesized, the number of points awarded depends on synthesis score. For designs that are not synthesized, the reward is calculated based on the similarity of a sequence to those that have been synthesized.</p> <p style="padding-left: 30px;">Reward History: On Mar 22, 2013 a [http://eterna.cmu.edu/web/news/2557013/ "News Item on new scoring method"] in EteRNA news announced a new scoring system due to the large increase in synthesized solutions allowed by Cloud Lab. The new Design reward = lab_score*4, and Vote_reward = lab_score*2. Prior to that the rewards calculation was Design reward = lab_score*20, and Vote_reward = lab_score*10.</p> <p> </p> <h2>Strategies</h2> <p style="padding-left: 30px;"><em> Main Article:</em> [[Lab Strategies]]</p> <p style="padding-left: 30px;"><em>Player-Created guides</em>: [http://eternawiki.org/wiki/index.php5/Player-Created_Guides#Lab_Guides Lab Guides]</p> <p> </p> <h3>Boosting</h3> <p>The value of [[boosting]] in lab is unclear. Previous winners have included both boosted and unboosted designs. Certain special loop sequences with very low free energy appear strongly base paired, however.</p> <p> </p> <h3>GC/AU/GU Ratio</h3> <p>[[GC Pair|GC pairs]] are more stable than AU or GU pairs; however, [[Christmas Tree|designs with very high GC content]] are difficult to synthesize and likely to misfold. Designs contining exclusively GC pairs are unlikely to be voted for or synthesized. Likewise, designs that are very rich in AU or GU pairs are unlikely to be selected for synthesis.</p> <p> </p> <h3>Computational Tools</h3> <p>The EteRNA lab interface contains two computational tools that provide insight into the stability of the RNA being designed: the [[Dot Plot|dot plot]] and the [[Melt Plot|melt plot]]. Additionally, many [[secondary structure prediction programs]] are available on the web. The utility of these tools remains unclear.</p> <p> </p> <h2>Cooperation and Etiquette</h2> <p>Most experienced players are eager to help others design sequences. Design strategies are openly discussed in chat, on the [http://eterna.cmu.edu/getsatisfactionredirect.php forum], and in the wiki. The use of other players' designs as starting points is common. Newcomers to lab may find it especially helpful to modify an existing design rather than start from scratch.</p> <p>Players are encouraged to acknowledge the original designer the sequence being modified. Asking for votes is considered impolite.</p> <p> </p> <h2>Overview of Lab Rounds</h2> <p>Here is a table for showing which batch a lab belongs to. It is useful knowing which round a lab belongs to because of the error rates of the lab data. </p> <p><span>Each synthesis round will have its own characteristics with respect to error rates. Each round is different. Sometimes, this is on purpose, as the lab tries to improve their process, and some times it is accidental, such as having reagents go bad for an unknown reason. Unlike the SHAPE values, the reported error rates are not normalized between rounds. So when comparing error rates between labs, it's important to know what rounds each of the labs were synthesized in. (Omei)</span></p> <p>Each round number is connected to an [[rdat]] file and most rounds have spreadsheets with extracted data. The data is taken from [[RMDB]] (<a href="http://rmdb.stanford.edu/repository/">RNA Mapping Database</a>). </p> <p><span> </span></p> <table border="1" cellpadding="3"> <tbody> <tr> <td>Round </td> <td>Comments</td> <td>Labs </td> <td style="width: 5%;" scope="col">Signal-to-noise average</td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R00_0000/ETERNA_R00_0000.rdat">R0</a></p> <p><span>12/21/2012</span></p> </td> <td> <p> </p> <p>First batch of Player Projects</p> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tWmpMQnZJTXdpYm8/edit">R0.xlsx</a></p> <p>R0.googlesheet</p> </td> <td rowspan="3"> <div>Project : Thicker Zigzag</div> <div>Project : Test of RNAfold (5)</div> <div>Project : Test of RNAfold (4)</div> <div>Project : Test of RNAfold (3)</div> <div>Project : Test of RNAfold (2)</div> <div>Project : Test of RNAfold (1)</div> <div>Project : Multiloop: Two Pairs of Adjacent Stacks</div> <div>Project : Testing various loop designs</div> <div>Project : Hard Lab Fragments: Kudzu Arm</div> <div>Project : Hard Lab Fragments: Kudzu Neck</div> <div>Project : Hard Lab Fragments: Making it Up As I Go Multiloop</div> <div>Project : Hard Lab Fragments: Water Strider Arm</div> <div>Project : Neck Length 2 - 4 branch multiloop</div> <div>Project : Bulge Sampler: 4-nt</div> <div>Project : Bulge Sampler: 3-nt</div> <div>Project : Bulge Sampler: 2-nt</div> <div>Project : Bulge Sampler: 1-nt</div> <div>Project : 3 single nucleotide bulges</div> <div>Project : Isolated Base Pairs: 2-2 Loops Adjacent to Multiloop</div> <div>Project : Isolated Base Pairs: Adjacent 2-1 Loops (1)</div> <div>Project : Isolated Base Pairs: Adjacent 2-1 Loops (3)</div> <div>Project : Isolated Base Pairs: Adjacent 2-1-Loops (4)</div> <div>Project : Zigzag: 1-Nucleotide Bulge (4)</div> <div>Project : Zigzag: 1-Nucleotide Bulge (3)</div> <div>Project : Zigzag: 1-Nucleotide Bulge (2)</div> <div>Project : Zigzag: 1-Nucleotide Bulge (1)</div> <div>Project : GU-pin shape test</div> <div>Project : comparison series: 2-10</div> <div>Project : comparison series: 2-9</div> <div>Project : comparison series: 2-8</div> <div>Project : Crossroads test</div> <div>Project : comparison series: 2-7</div> <div>Project : comparison series: 2-6</div> <div>Project : comparison series: 2-5</div> <div>Project : comparison series: 2-4</div> <div>Project : comparison series: 2-3</div> <div>Project : Fisker - 2-2 loop energy challenge</div> <div>Project : comparison series: 10-2</div> <div>Project : comparison series: 9-2</div> <div>Project : comparison series: 8-2</div> <div>Project : comparison series: 7-2</div> <div>Project : comparison series: 6-2</div> <div>Project : comparison series: 5-2</div> <div>Project : comparison series: 4-2</div> <div>Project : Mat - comparison series: 3-2 - D1</div> <div>Project : comparison series: Hairpin loop with 15 nts</div> <div>Project : comparison series: Hairpin loop with 14 nts</div> <div>Project : comparison series: Hairpin loop with 13 nts</div> <div>Project : comparison series: Hairpin loop with 12 nts</div> <div>Project : comparison series: Hairpin loop with 11 nts</div> <div>Project : Mat - comparison series: Hairpin loop with 10 nts</div> <div>Project : Mat - comparison series: Hairpin loop with 9 nts- D1</div> <div>Project : Five Branch Multiloop</div> <div>Project : comparison series: Octaloops</div> <div>Project : comparison series: Heptaloop</div> <div>Project : comparison series: Hexaloop </div> <div>Project : comparison series: Pentaloop </div> <div>Project : comparison series: Triloop </div> <div>Project : Multiloop: 4 Branches Separated by Single Unpaired Bases</div> <div>Project : Multiloop: 3 Branches Unevenly Spaced (2)</div> <div>Project : Multiloop: 3 Branches Unevenly Spaced (1)</div> <div>Project : Multiloop: 3 Branches 12 Unpaired Bases</div> <div>Project : Multiloop: 3 Branches No Unpaired Bases</div> <div>Project : 3-4 and 1-2 loops</div> <div>Project : Chain length and loop size series 1-10</div> <div>Project : chain lenth and loop size series 1-9</div> <div>Project : chain length and loop size series 1-8</div> <div>Project : chain length and loop size series 1-5</div> <div>Project : chain length and loop size series 1-4</div> <div>Project : chain lengh an loop size series 1-3</div> <div>Project : comparison series: 1-15</div> <div>Project : comparison series: 2-15</div> <div>Project : comparison series: 3-15</div> <div>Project : comparison series: 4-15</div> <div>Project : comparison series: 5-15</div> <div>Project : comparison series: 6-15</div> <div>Project : comparison series: 7-15</div> <div>Project : comparison series: 8-15</div> <div>Project : comparison series: 9-15</div> <div>Project : comparison series: 10-15</div> <div>Project : comparison series: 11-15</div> <div>Project : comparison series: 12-15</div> <div>Project : comparison series: 13-15</div> <div>Project : comparison series: 14-15</div> <div>Project : comparison series: 15-1</div> <div>Project : comparison series: 15-2</div> <div>Project : comparison series: 15-3</div> <div>Project : comparison series: 15-4</div> <div>Project : comparison series: 15-5</div> <div>Project : comparison series: 15-6</div> <div>Project : comparison series: 15-7</div> <div>Project : comparison series: 15-8</div> <div>Project : comparison series: 15-9</div> <div>Project : comparison series: 15-10</div> <div>Project : comparison series: 15-11</div> <div>Project : comparison series: 15-12</div> <div>Project : comparison series: 15-13</div> <div>Project : comparison series: 15-14</div> <div>Project : comparison series: 15-15</div> <div>Project : comparison series: 14-14</div> <div>Project : comparison series: 13-13</div> <div>Project : comparison series: 12-12</div> <div>Project : comparison series: 11-11</div> <div>Project : comparison series: 10-10</div> <div>Project : comparison series: 9-9</div> <div>Project : comparison series: 8-8</div> <div>Project : comparison series: 7-7</div> <div>Project : comparison series: 6-6</div> <div>Project : comparison series:</div> <div>Project : comparison series: 4-4</div> <div>Project : comparison series:</div> <div>Project : comparison series: 2-2</div> <div>Project : comparison series: 1-1</div> <div>Project : Two stacks</div> <div>Project : Lab design for newer players</div> <div>Project : Sample puzzle for lab</div> <div>Project : Pseudoknot 2: Biotin-Binding Pseudoknot</div> <div>Project : Pseudoknot 1: Minimal</div> <div>Project : Half of The Branches</div> <div>Project : Saccharomyces Cerevisiae Loop Structure</div> <div>Project : 30 Nucleotide Loop 3 - Bulge Internal Loop</div> <div>Project : Two bulges and a 1-2 loop (reverse)</div> <div>Project : 30 Nucleotide Loop 2 - Asymmetric Internal Loop</div> <div>Project : 30 Nucleotide Loop 1 - Symmetric Internal Loop</div> <div>Project : Sharklike V-2 (SHAPE data Exp-2)</div> <div>Project : Sharklike V-1 (SHAPE data Exp-1)</div> <div>Project : S&E5 Modified</div> <div>Project : Reshiram Zekrom Kyurem</div> <div>Project : All red and blue</div> <div>Project : Bulge test</div> <div>Project : Guanine Reduction</div> <div>Project : Uracil Reduction</div> <div>Project : Large Isolated Hairpin</div> <div>Project : Isolated Closing Pairs 3</div> <div>Project : Alternative Mismatches</div> <div>Project : Adenine Reduction</div> <div>Project : Internal Loops: 5-2</div> <div>Project : Internal Loops: 6-3</div> <div>Project : FMN-RNA aptamer complex lab</div> <div>Project : Tobramycin Aptamer</div> <div>Project : Hairpins: Heptaloop</div> <div>Project : Hairpins: Hexaloop</div> <div>Project : Hairpins: Pentaloop</div> <div>Project : Hairpins: Tetraloop</div> <div>Project : Hairpins: Triloop</div> <div>Project : Chesterfield s-The Mousekateer</div> <div>Project : Plain Hooked</div> <div>Project : Nupack s Finger Revisited</div> <div>Project : Large Loop</div> <div>Project : Hooked</div> <div>Project : Multiloop Isolated Closing Pairs</div> <div>Project : Cytosine reduction</div> <div>Project : Loop Heavy</div> <div>Project : Fractal RNA</div> <div>Project : Isolated Closing Pairs 2</div> <div>Project : Repetitive Structures</div> <div>Project : Isolated Closing Pairs 1</div> <div>Project : 4-4 loop</div> <div>Project : JerryP s winning design without tetraloop boost</div> <div>Project : 2-2 loop</div> <div>Project : Example project 2</div> <div>Project : Example project</div> <div>Shape Library 101: The Finger</div> <div>Project: mRNA structure</div> <div>Project: helix stacking</div> <div>Project: all non-canonical pairs</div> <div>Project : miRNA hairpin robustness</div> <div>Project: metal ion pseudoknots</div> <div>Project: VAI protein kinase R inhibitor</div> <div>Project: unbound aptamer structures</div> <div>Project: Parin s favorite motifs</div> <div>therm1</div> </td> <td> <span>1.583</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R00_0001/ETERNA_R00_0001.rdat">R1</a></p> <p><span>4/9/2013</span></p> </td> <td style="width: 300px;"> <div>Second batch of Player Projects</div> <div>Tested with four different SHAPE reagents:</div> <div> <ul> <li>[[NMIA]]</li> <li>[[DMS]]</li> <li>[[CMCT]]</li> <li>[[1M7]]</li> </ul> </div> <div>Signal-to-Noise Averages not currently available </div> </td> <td style="width: 300px;"> </td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R00_0002/ETERNA_R00_0002.rdat">R2</a></p> <p><span>3/7/2013</span></p> </td> <td style="width: 200px;"> <div>Third batch of Player Projects</div> <div>Tested with four different SHAPE reagents:</div> <div> <ul> <li>[[NMIA]]</li> <li>[[DMS]]</li> <li>[[CMCT]]</li> <li>[[1M7]]</li> </ul> </div> <div>Each design was tested with each reagent twice, the second time with a different barcode</div> <div>Signal-to-Noise Averages not currently available </div> <br /></td> <td style="width: 200px;"> </td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R69_0000/ETERNA_R69_0000.rdat">R69</a></td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tZTJBMWw0N2lwS2s/edit">R69.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1QJOef_vkHlKOiGGmEg3PesD2tuUppSI4BeUSl8xnmFM/edit#gid=700607798">R69.googlesheet</a></p> </td> <td> <div>Cloud Lab 1 - Aires by wateronthemoon</div> <div>Cloud Lab 2 - Triangle of doom version 2 by dstea</div> <div>Cloud Lab 3 - A Simple Zigzag by janelle</div> <div>Cloud Lab 4 - Random by theravin</div> <div>Cloud Lab 5 - The Nonesuch by rnjensen45</div> <div>Cloud Lab 6 - Cross by firedrake969</div> <div>Cloud Lab 7 - 5 Fold Radial Asymmetrical Starfish Level 0 by Jieux</div> <div>Cloud Lab 8 - Stellar Crossbow by jmf028</div> <div>Cloud Lab 9 - Final Countdown by Tesla sDisciple</div> <div>Cloud Lab 10 - Random Shape 2 by ElNando888</div> <div>Cloud Lab 11 - Little bug by JR</div> <div>Cloud Lab 12 - Anchor by ribonucleic</div> <div>Cloud Lab 13 - Alien Party Glasses by Jennifer Pearl</div> <div>Cloud Lab 14 - Easy loop sizes by Edward Lane</div> <div>Cloud Lab 15 - Triloop Buffet by jandersonlee</div> <div>Cloud Lab 16 - Section from lab Water Strider by Brourd</div> <div>Cloud Lab 17 - Oryza sativa 8 Elements Part 2 by merryskies</div> <div>Cloud Lab 18 - Anaconda About to Poop by SpaceFolder</div> <div>Cloud Lab 19 - Big Hairpin Loop by Eli Fisker</div> <div>Cloud Lab 20 - Random4 by mat747</div> </td> <td> <span>6.998</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R70_0000/ETERNA_R70_0000.rdat">R70</a></td> <td> <p>Switch Cloud Labs </p> </td> <td> <div>LabPuz02 by JR</div> <div>Bistable 3 by jnicol</div> <div>Hair Trigger by space_miser</div> <div>Will It Bind? by jmf028</div> <div>Stratospheric by Dennis9600</div> <div>Phase II - 1 by ElNando888</div> <div>LS2 by c-quence</div> <div>Anchor 2.0 by ribonucleic</div> <div>Day 2 by wateronthemoon</div> <div>Alive and kicking by Eli Fisker</div> <div>Laydown and Jump by rnjensen45</div> <div>McSwitch by Meechl</div> <div>Water Snake Redux by jruaya</div> <div>My Screw-Up Corrected? by SpaceFolder</div> <div>Nincompoop by hoglahoo</div> <div>Lines by starryjess</div> <div>Bound state has a zigzag by stevetclark</div> <div>Chirality by kcabral28</div> <div>Switch Test 1 by Brourd</div> <div>Top Notch by jmf028</div> </td> <td> </td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R71_0000/ETERNA_R71_0000.rdat">R71</a></p> <p><span>5/10/2013</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tUkdWcEVWaHJCYnM/edit">R71.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1KoNl5DKcCOvfjTaRAqwOTdZmPeZ9uhRuSv2GaGlnzVs/edit" target="_blank">R71.googlesheet</a></p> </td> <td> <div>My Screw-Up Corrected? by SpaceFolder</div> <div>Cloud Lab 1 - Aires by wateronthemoon</div> <div>Cloud Lab 2 - Triangle of doom version 2 by dstea</div> <div>Cloud Lab 3 - A Simple Zigzag by janelle</div> <div>Cloud Lab 4 - Random by theravin</div> <div>Cloud Lab 5 - The Nonesuch by rnjensen45</div> <div>Cloud Lab 6 - Cross by firedrake969</div> <div>Cloud Lab 7 - 5 Fold Radial Asymmetrical Starfish Level 0 by Jieux</div> <div>Cloud Lab 8 - Stellar Crossbow by jmf028</div> <div>Cloud Lab 9 - Final Countdown by Tesla sDisciple</div> <div>Cloud Lab 10 - Random Shape 2 by ElNando888</div> <div>Cloud Lab 11 - Little bug by JR</div> <div>Cloud Lab 12 - Anchor by ribonucleic</div> <div>Cloud Lab 13 - Alien Party Glasses by Jennifer Pearl</div> <div>Cloud Lab 14 - Easy loop sizes by Edward Lane</div> <div>Cloud Lab 15 - Triloop Buffet by jandersonlee</div> <div>Cloud Lab 16 - Section from lab Water Strider by Brourd</div> <div>Cloud Lab 17 - Oryza sativa 8 Elements Part 2 by merryskies</div> <div>Cloud Lab 18 - Anaconda About to Poop by SpaceFolder</div> <div>Cloud Lab 19 - Big Hairpin Loop by Eli Fisker</div> <div>Cloud Lab 20 - Random4 by mat747</div> </td> <td> <span>3.698</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R72_0000/ETERNA_R72_0000.rdat">R72</a></p> <p><span>6/11/2013</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tdUtaamZYNmdRTHc/edit">R72.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1AHTJ1GvSs9tLoXyG6xLVIErUY6HYPmtA7WhgaD836vI/edit">R72.googlesheet</a></p> </td> <td> <div>Ball & Chain by Krobar</div> <div>Simplify by Tesla sDisciple</div> <div>An Arm and a Leg 1.0 by kcabral28</div> <div>Huffman by hotcreek</div> <div>QRNAL0 by Quxwozing</div> <div>Riboswitch-based by jruaya</div> <div>1-X bulge testing by Omei</div> <div>EzFold by space_miser</div> <div>Thursday by DHammond</div> <div>TEBOWNED mutation - BH</div> <div>TEBOWNED mutation - U</div> <div>TEBOWNED mutation - B</div> <div>Flu Virus</div> <div>TEBOWNED reloaded</div> <div>MedLoop</div> <div>Ball & Chain by Krobar</div> <div>Simplify by Tesla sDisciple</div> <div>An Arm and a Leg 1.0 by kcabral28</div> <div>Huffman by hotcreek</div> <div>QRNAL0 by Quxwozing</div> <div>Riboswitch-based by jruaya</div> <div>1-X bulge testing by Omei</div> <div>EzFold by space_miser</div> <div>Thursday by DHammond</div> </td> <td> <span>4.272</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R73_0000/ETERNA_R73_0000.rdat">R73</a></p> <p><span>7/30/2013</span></p> </td> <td> <p>R73.xlsx</p> <p>R73.googlesheet</p> <p> </p> </td> <td rowspan="2"> <div>1-1-1-1-1-1 Multiloop</div> <div>2-2 and 3-3 loops</div> <div>A-U Closing Base Pairs</div> <div>caulobacter_ncrna_lists</div> <div>Hex-a-Stripe</div> <div>Magic boosts in 2-2 loops</div> <div>Magic boosts in 2-2 loops revised thanks starry</div> <div>Permuted loops</div> <div>Probing the 3D motif atlas</div> <div>Quad Loop test</div> <div>RNA Bridge</div> <div>RNA Bridge (Updated)</div> <div>RNA Strength</div> <div>Short Stacks</div> <div>Single state - Switch state</div> <div>Single to Switch try 2</div> <div>The GAAA loop</div> <div>Tighter Two Stacks for 3-way Multi-Loop testing</div> <div>Tribute To Satellite Kepler</div> <div>Two stacks</div> <div>Two Stacks - Triloop hairpin variation</div> <div>Variations on a theme of 1-0 loops and short stack hairpins</div> </td> <td> <span>3.775</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R73_0001/ETERNA_R73_0001.rdat">R73.0001</a></p> </td> <td> <p>R73.0001.xlsx</p> <p>R73.0001.googlesheet</p> </td> <td> <span>3.881</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R74_0000/ETERNA_R74_0000.rdat">R74</a></td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tQThwcXVQS0ZFSU0/edit">R74.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1shiXSSzXfgRbAjyo-wgbZwmJkebD_EZCkvBEDx0jGj8/edit#gid=1970956825">R74.googlesheet</a></p> </td> <td> <div>A-U Closing Base Pairs 2</div> <div>Tetraloops and 0-0-0-0 Multiloop Phase 1</div> <div>Tetraloops and 0-0-0-0 Multiloop Phase 1 Version 2</div> <div>Lonely Base Pair - 1-1: Multiloop</div> <div>Lonely Base Pair - 2-2: Multiloop</div> <div>Lonely Base Pair - 3-3: Multiloop</div> <div>FMN Switch 2.0 - First State with Locked Bases</div> <div>Can We do it in 10? - FMN Switch 2.0</div> <div>Triloop with multiloop core phase 1</div> <div>Two Bulge Zigzag - Variation 1</div> <div>Two Bulge Zigzag - Variation 3</div> <div>Two Bulge Zigzag - Variation 4</div> <div>G-U Closing Base Pairs</div> <div>G-U Closing Base Pairs 2</div> <div>Reversed G-C Multibranch Loop Closing Base Pairs</div> <div>Probing for tertiary structure</div> <div>Modeled Impossible: 31+ Nucleotide Internal Loops</div> <div>RNA windows pilot project - 16s rRNA (3I1M)</div> <div>Caulobacter ncRNA discovery</div> <div>Tristable RNA</div> <div>Hammerhead Ribozyme Wildtype Mutate and Map</div> <div>MedLoop V2</div> <div>Hammerhead Ribozyme G12A Mutate and Map</div> <div>Entoplea bizarre tRNA 2D structure mt tRNA-Arg</div> </td> <td> <span>4.442</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R75_0000/ETERNA_R75_0000.rdat">R75</a></td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tbWlXMVBISWlZYUU/edit">R75.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1hlnwjh0PzQN2jkqyWsXeDNaT2HcmsbYV_zUoUEvk3FA/edit#gid=1079768058">R75.googlesheet</a></p> </td> <td> <div>Short Stacks 2</div> <div>SARS coronavirus structure test</div> <div>FMN Binding Site Chemical Footprint</div> <div>Modeled Impossible: 1 Nucleotide Bulge/Triloop Lonely base pair V1</div> <div>New Frontier</div> <div>Frog leg - Electric</div> <div>ZigZag and ZagZig</div> <div>Chicken leg</div> <div>Chicken leg - Splayed</div> <div>Motor Protein - Step 1</div> <div>Motor Protein - Step 2</div> <div>Motor Protein - Step 3</div> <div>Intrinsically unfolded RNA</div> <div>Probing the structure of poly-A loops by mutation</div> <div>PSTVd probing</div> <div>Improving the Nearest Neighbor Energy Model Using EteRNA Pilot</div> <div>TCF21 3 UTR</div> <div>MedLoop redux</div> </td> <td> <span>5.621</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R76_0000/ETERNA_R76_0000.rdat">R76</a></p> <p><span>8/23/2013</span></p> </td> <td> <p>R76.xlsx</p> <p><a href="/wiki/Now I found">R76.googlesheet</a></p> </td> <td rowspan="2"> <div>Find Z - Here It Is!</div> <div>Two Bulge Zigzag - Both Conformations</div> <div>Two Bulge Zigzag - Variation 2</div> <div>Modeled Impossible: 1 Nucleotide Bulge/Triloop Lonely base pair V2</div> <div>TinkerToy Retread</div> <div>Frog leg - relaxed</div> <div>Frog leg - Stretched toe</div> <div>Intersecting stacks 2</div> <div>Is RNA directional 1 of 2</div> <div>Semicircle - 2 bends</div> <div>Semicircle - 5 bends</div> <div>Location Dependent Chemical Footprints Part 1</div> <div>Location Dependent Chemical Footprints Part 3</div> <div>Location Dependent Chemical Footprints Part 4</div> <div>Location Dependent Chemical Footprints Part 5</div> <div>Location Dependent Chemical Footprints Part 6</div> <div>Teeny tRNA</div> <div>P5abc Mutants to Affect Folding Transitions</div> <div>Testing 3D structure prediction of G/G mismatches (boosts!)</div> <div>Testing for crazy conformations of tandem G/A and A/G pairs</div> <div>A codon riboswitch</div> </td> <td> <span>3.692</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R76_0001/ETERNA_R76_0001.rdat">R76.0001</a></td> <td> <p>R76.0001.xlsx</p> <p><a href="https://docs.google.com/spreadsheets/d/1UfHI3n_VrNs_zKZo1OQiXdfPZEow7HjhzvwYOwz_4b8/edit#gid=2146640202">R76.0001.googlesheets</a></p> </td> <td> <span>3.389</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R77_0000/ETERNA_R77_0000.rdat">R77</a></p> <p><span>9/23/2013</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1teGdXLXhhTEJ1U1U/edit">R77.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1WSvlRAP0Ylzr90Y7ff6-X8j_4yzWm8uTb3U_xQdWjVE/edit#gid=960893421">R77.googlesheet</a></p> </td> <td> <div>Intersecting stacks investigation</div> <div>Is RNA directional 2 of 2</div> <div>Semicircle - 3 bends</div> <div>Semicircle - 4 bends</div> <div>Location Dependent Chemical Footprints Part 2</div> <div>Could Curves Survive?</div> <div>Adding some sweet tetraloops</div> <div>Palindromes part one</div> <div>Dimer B</div> <div>Dimer A</div> <div>Robot serial killer 1 - Lab killer too?</div> <div>Robot serial killer 2 - Lab killer too?</div> <div>Short Stacks 3</div> <div>Relaxed multiloop 2</div> <div>New Frontier 2</div> <div>Five Adjacent Stem Multibranch Loop</div> <div>crRNA</div> <div>tracrRNA</div> <div>sgRNA89_NGS</div> <div>sgRNA67</div> <div>sgRNA48</div> <div>Repeat hairpins v1</div> <div>Codon riboswitch [repeat of tryptophan]</div> <div>Codon riboswitch [arginine]</div> <div>Class I ligase</div> <div>MedLoop resurrected</div> <div>Un-stable</div> <div>M-stable</div> <div>EteRNA R45-46 FMN Aptamer with Single Binding Site</div> <div>EteRNA R43 the Backwards C</div> <div>Codon riboswitch [histidine]</div> <div>Reproducibility Lab 1</div> </td> <td> <span>1.714</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R78_0000/ETERNA_R78_0000.rdat">R78</a></td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tQWRrejlFZ3g0N1k/edit">R78.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/12qj21bpyhl17O940eqxFau77NK3c8Q1OkY205-lE56s/edit">R78.googlesheet</a></p> </td> <td> <div>Example project..</div> <div>G-U GAGA Tetraloop Boost</div> <div>Repetitious sequences</div> <div>Robot serial killer 3 - Lab killer too?</div> <div>FMN Shape Test- 1st State</div> <div>FMN Shape Test- 2nd State</div> <div>Wobble Quad Stability 1</div> <div>SHAPE Profile - U-U Mismatch - Pilot Run</div> <div>SHAPE Profile - C-U Mismatch - Pilot Run</div> <div>SHAPE Profile - U-C Mismatch - Pilot Run</div> <div>SHAPE Profile - C-A Mismatch - Pilot Run</div> <div>SHAPE Profile - A-C Mismatch - Pilot Run</div> <div>SHAPE Profile - G-A Mismatch - Pilot Run</div> <div>SHAPE Profile - A-G Mismatch - Pilot Run</div> <div>Unmodified tRNA sequences</div> <div>Chicken Leg - Reversed</div> <div>Reversed motor - step 1</div> <div>Double 1-3 Loop</div> <div>SHAPE Profile - C-C Mismatch - Pilot Run</div> <div>Large GU stack</div> <div>Neck strength analysis 3 of 3 - Weak - AUs + GUs.</div> <div>Hexaloop Kd and SHAPE test</div> <div>P5abc Mutants to Affect Folding Transitions 2</div> <div>MedLoop Double Mutants - Shape 0</div> <div>MedLoop delta Double Mutants - Shape 0</div> <div>Bistable double mutants - Shape 0</div> <div>M-stable double mutants - Shape 0</div> <div>Un-stable double mutants - Shape 0</div> <div>Bistable hairpin mutate and map - Shape 0</div> <div>Un-stable alternative mutate-and-map - Shape 0</div> <div>RPL11a Pseudouridylation Site Mutate and Map - Shape 0</div> <div>TEF1 Pseudouridylation Site Mutate and Map - Shape 0</div> <div>RPL11a Mutant Pseudouridylation Site Mutate and Map - Shape 0</div> <div>Permuted Loops - Shape 0</div> <div>Permuted Loops - Shape 1</div> <div>Permuted Loops - Shape 2</div> <div>Permuted Loops - Shape 3</div> <div>Permuted Loops - Shape 4</div> <div>Permuted Loops - Shape 5</div> <div>Permuted Loops - Shape 6</div> <div>Permuted Loops - Shape 7</div> <div>Permuted Loops - Shape 8</div> <div>Permuted Loops - Shape 9</div> <div>Permuted Loops - Shape 10</div> <div>Permuted Loops - Shape 11</div> <div>Permuted Loops - Shape 12</div> <div>Permuted Loops - Shape 13</div> <div>Permuted Loops - Shape 14</div> <div>Permuted Loops - Shape 15</div> <div>Permuted Loops - Shape 16</div> <div>Permuted Loops - Shape 17</div> <div>Permuted Loops - Shape 18</div> <div>Permuted Loops - Shape 19</div> <div>Permuted Loops - Shape 20</div> <div>Permuted Loops - Shape 21</div> <div>Permuted Loops - Shape 22</div> <div>Permuted Loops - Shape 23</div> <div>Permuted Loops - Shape 24</div> <div>Permuted Loops - Shape 25</div> <div>Permuted Loops - Shape 26</div> <div>Permuted Loops - Shape 27</div> <div>Permuted Loops - Shape 28</div> <div>Permuted Loops - Shape 29</div> <div>Permuted Loops - Shape 30</div> <div>Permuted Loops - Shape 31</div> <div>Permuted Loops - Shape 32</div> <div>Permuted Loops - Shape 33</div> <div>Permuted Loops - Shape 34</div> <div>Permuted Loops - Shape 35</div> <div>Permuted Loops - Shape 36</div> <div>Permuted Loops - Shape 37</div> <div>Reproducibility Lab Another Round - Shape 0</div> <div>Reproducibility Lab Another Round - Shape 1</div> <div>Reproducibility Lab Another Round - Shape 2</div> <div>Reproducibility Lab Another Round - Shape 3</div> <div>Reproducibility Lab Another Round - Shape 4</div> <div>Reproducibility Lab Another Round - Shape 5</div> <div>Reproducibility Lab Another Round - Shape 6</div> <div>Reproducibility Lab Another Round - Shape 7</div> <div>Reproducibility Lab Another Round - Shape 8</div> <div>Reproducibility Lab Another Round - Shape 9</div> <div>Reproducibility Lab Another Round - Shape 10</div> <div>Reproducibility Lab Another Round - Shape 11</div> <div>Reproducibility Lab Another Round - Shape 12</div> <div>Reproducibility Lab Another Round - Shape 13</div> <div>Reproducibility Lab Another Round - Shape 14</div> <div>Reproducibility Lab Another Round - Shape 15</div> <div>Reproducibility Lab Another Round - Shape 16</div> <div>Reproducibility Lab Another Round - Shape 17</div> <div>Reproducibility Lab Another Round - Shape 18</div> <div>Reproducibility Lab Another Round - Shape 19</div> <div>Reproducibility Lab Another Round - Shape 20</div> <div>Influenza PB2 mutant sequences - Shape 0</div> <div>Influenza PB2 mutant sequences - Shape 1</div> <div>Single strand barcodes - Shape 0</div> <div>Single strand barcodes - Shape 1</div> <div>Single strand barcodes - Shape 2</div> <div>Single strand barcodes - Shape 3</div> </td> <td> <span>2.604</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R79_0000/ETERNA_R79_0000.rdat">R79</a></td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1ta09lcWtuMXIyMDA/edit">R79.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1v9x5Bl8J5cTzyXiVwC_wCzuoHHcdo--aU8HlRWAx0-E/edit#gid=340710794">R79.googlesheet</a></p> </td> <td> <div>Test of locking loop bases in a ribozyme-like structure</div> <div>Relaxed multiloop 1</div> <div>Relaxed multiloop 3</div> <div>Reversed motor - Step 2</div> <div>Reversed motor - Step 3</div> <div>Reversed motor - Step 4</div> <div>A-U Closing Base Pairs 3</div> <div>A-U Closing Base Pairs 4</div> <div>T.thermophilise16S Hammerhead</div> <div>Alien partial glasses - Mirror version</div> <div>Single to Switch try 2 - Mirror version</div> <div>Let s break the barcode</div> <div>Don Quixote</div> <div>Mummiebrain s M2</div> <div>Impossible Folding II - The Intramolecular G-quadruplex</div> <div>PB2elem2_MR_syn - Shape 0</div> <div>GNRA/receptor project - Shape 0</div> <div>GNRA/receptor project - Shape 1</div> <div>GNRA/receptor project - Shape 2</div> <div>GNRA/receptor project - Shape 3</div> <div>CR4-5 domain of human telomerase - Shape 0</div> <div>CR4-5 domain of human telomerase - Shape 1</div> <div>CR4-5 domain of human telomerase - Shape 2</div> <div>CR4-5 domain of human telomerase - Shape 3</div> <div>CR4-5 domain of human telomerase - Shape 4</div> <div>CR4-5 domain of human telomerase - Shape 5</div> <div>CR4-5 domain of human telomerase - Shape 6</div> <div>CR4-5 domain of human telomerase - Shape 7</div> <div>CR4-5 domain of human telomerase - Shape 8</div> <div>CR4-5 domain of human telomerase - Shape 9</div> <div>CR4-5 domain of human telomerase - Shape 10</div> <div>CR4-5 domain of human telomerase - Shape 11</div> <div>CR4-5 domain of human telomerase - Shape 12</div> <div>CR4-5 domain of human telomerase - Shape 13</div> <div>CR4-5 domain of human telomerase - Shape 14</div> <div>CR4-5 domain of human telomerase - Shape 15</div> <div>CR4-5 domain of human telomerase - Shape 16</div> <div>CR4-5 domain of human telomerase - Shape 17</div> <div>CR4-5 domain of human telomerase - Shape 18</div> <div>CR4-5 domain of human telomerase - Shape 19</div> <div>CR4-5 domain of human telomerase - Shape 20</div> <div>CR4-5 domain of human telomerase - Shape 21</div> <div>CR4-5 domain of human telomerase - Shape 22</div> <div>CR4-5 domain of human telomerase - Shape 23</div> <div>CR4-5 domain of human telomerase - Shape 24</div> <div>CR4-5 domain of human telomerase - Shape 25</div> <div>CR4-5 domain of human telomerase - Shape 26</div> <div>CR4-5 domain of human telomerase - Shape 27</div> <div>CR4-5 domain of human telomerase - Shape 28</div> <div>CR4-5 domain of human telomerase - Shape 29</div> <div>CR4-5 domain of human telomerase - Shape 30</div> <div>CR4-5 domain of human telomerase - Shape 31</div> <div>CR4-5 domain of human telomerase - Shape 32</div> <div>CR4-5 domain of human telomerase - Shape 33</div> <div>CR4-5 domain of human telomerase - Shape 34</div> <div>CR4-5 domain of human telomerase - Shape 35</div> <div>CR4-5 domain of human telomerase - Shape 36</div> <div>CR4-5 domain of human telomerase - Shape 37</div> <div>CR4-5 domain of human telomerase - Shape 38</div> <div>CR4-5 domain of human telomerase - Shape 39</div> <div>CR4-5 domain of human telomerase - Shape 40</div> <div>CR4-5 domain of human telomerase - Shape 41</div> <div>CR4-5 domain of human telomerase - Shape 42</div> <div>CR4-5 domain of human telomerase - Shape 43</div> <div>CR4-5 domain of human telomerase - Shape 44</div> <div>CR4-5 domain of human telomerase - Shape 45</div> <div>CR4-5 domain of human telomerase - Shape 46</div> <div>CR4-5 domain of human telomerase - Shape 47</div> <div>CR4-5 domain of human telomerase - Shape 48</div> <div>CR4-5 domain of human telomerase - Shape 49</div> <div>CR4-5 domain of human telomerase - Shape 50</div> <div>CR4-5 domain of human telomerase - Shape 51</div> <div>CR4-5 domain of human telomerase - Shape 52</div> <div>CR4-5 domain of human telomerase - Shape 53</div> <div>CR4-5 domain of human telomerase - Shape 54</div> <div>CR4-5 domain of human telomerase - Shape 55</div> <div>CR4-5 domain of human telomerase - Shape 56</div> <div>CR4-5 domain of human telomerase - Shape 57</div> <div>RF01020 mutate-and-map - Shape 0</div> <div>RF01020 mutate-and-map - Shape 1</div> <div>RF01020 mutate-and-map - Shape 2</div> <div>RF01020 mutate-and-map - Shape 3</div> <div>RF01020 mutate-and-map - Shape 4</div> <div>RF01020 mutate-and-map - Shape 5</div> <div>RF01020 mutate-and-map - Shape 6</div> <div>RF01020 mutate-and-map - Shape 7</div> <div>RF01020 mutate-and-map - Shape 8</div> <div>RF01020 mutate-and-map - Shape 9</div> <div>RF01020 mutate-and-map - Shape 10</div> <div>RF01020 mutate-and-map - Shape 11</div> <div>RF01020 mutate-and-map - Shape 12</div> <div>RF01020 mutate-and-map - Shape 13</div> <div>RF01020 mutate-and-map - Shape 14</div> <div>RF01020 mutate-and-map - Shape 15</div> <div>RF01020 mutate-and-map - Shape 16</div> <div>RF01020 mutate-and-map - Shape 17</div> <div>RF01020 mutate-and-map - Shape 18</div> <div>RF01020 mutate-and-map - Shape 19</div> <div>RF01020 mutate-and-map - Shape 20</div> <div>RF01020 mutate-and-map - Shape 21</div> <div>RF01020 mutate-and-map - Shape 22</div> <div>RF01020 mutate-and-map - Shape 23</div> <div>RF01020 mutate-and-map - Shape 24</div> <div>RF01020 mutate-and-map - Shape 25</div> <div>RF01020 mutate-and-map - Shape 26</div> <div>RF01020 mutate-and-map - Shape 27</div> <div>RF01020 mutate-and-map - Shape 28</div> <div>RF01020 mutate-and-map - Shape 29</div> <div>RF01020 mutate-and-map - Shape 30</div> <div>RF01020 mutate-and-map - Shape 31</div> <div>RF01020 mutate-and-map - Shape 32</div> <div>RF01020 mutate-and-map - Shape 33</div> <div>RF01020 mutate-and-map - Shape 34</div> <div>RF01020 mutate-and-map - Shape 35</div> <div>RF01020 mutate-and-map - Shape 36</div> <div>RF01020 mutate-and-map - Shape 37</div> <div>RF01414 mutate-and-map - Shape 0</div> <div>RF01414 mutate-and-map - Shape 1</div> <div>RF01414 mutate-and-map - Shape 2</div> <div>RF01414 mutate-and-map - Shape 3</div> <div>RF01414 mutate-and-map - Shape 4</div> <div>RF01414 mutate-and-map - Shape 5</div> <div>RF01414 mutate-and-map - Shape 6</div> <div>RF01414 mutate-and-map - Shape 7</div> <div>RF01414 mutate-and-map - Shape 8</div> <div>RF01414 mutate-and-map - Shape 9</div> <div>RF01414 mutate-and-map - Shape 10</div> <div>RF01414 mutate-and-map - Shape 11</div> <div>RF01414 mutate-and-map - Shape 12</div> <div>RF01414 mutate-and-map - Shape 13</div> <div>RF01414 mutate-and-map - Shape 14</div> <div>RF01414 mutate-and-map - Shape 15</div> <div>RF01414 mutate-and-map - Shape 16</div> <div>RF01414 mutate-and-map - Shape 17</div> <div>RF01414 mutate-and-map - Shape 18</div> <div>RF01414 mutate-and-map - Shape 19</div> <div>RF01414 mutate-and-map - Shape 20</div> <div>RF01414 mutate-and-map - Shape 21</div> <div>RF01414 mutate-and-map - Shape 22</div> <div>RF01414 mutate-and-map - Shape 23</div> <div>RF01414 mutate-and-map - Shape 24</div> <div>RF01414 mutate-and-map - Shape 25</div> <div>RF01414 mutate-and-map - Shape 26</div> <div>RF01414 mutate-and-map - Shape 27</div> <div>RF01125 mutate-and-map - Shape 0</div> <div>RF01125 mutate-and-map - Shape 1</div> <div>RF01125 mutate-and-map - Shape 2</div> <div>RF01125 mutate-and-map - Shape 3</div> <div>RF01125 mutate-and-map - Shape 4</div> <div>RF01125 mutate-and-map - Shape 5</div> <div>RF01125 mutate-and-map - Shape 6</div> <div>RF01125 mutate-and-map - Shape 7</div> <div>RF01125 mutate-and-map - Shape 8</div> <div>RF01125 mutate-and-map - Shape 9</div> <div>RF01125 mutate-and-map - Shape 10</div> <div>RF01125 mutate-and-map - Shape 11</div> <div>RF01125 mutate-and-map - Shape 12</div> <div>RF01125 mutate-and-map - Shape 13</div> <div>RF01125 mutate-and-map - Shape 14</div> <div>RF01125 mutate-and-map - Shape 15</div> <div>RF01125 mutate-and-map - Shape 16</div> <div>RF01125 mutate-and-map - Shape 17</div> <div>RF01125 mutate-and-map - Shape 18</div> <div>RF01125 mutate-and-map - Shape 19</div> <div>RF01125 mutate-and-map - Shape 20</div> <div>RF01125 mutate-and-map - Shape 21</div> <div>RF01125 mutate-and-map - Shape 22</div> <div>RF01125 mutate-and-map - Shape 23</div> <div>RF01125 mutate-and-map - Shape 24</div> <div>RF01125 mutate-and-map - Shape 25</div> <div>RF01125 mutate-and-map - Shape 26</div> <div>RF01125 mutate-and-map - Shape 27</div> <div>RF01125 mutate-and-map - Shape 28</div> <div>RF01125 mutate-and-map - Shape 29</div> <div>RF01125 mutate-and-map - Shape 30</div> </td> <td> <span>3.046</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R80_0000/ETERNA_R80_0000.rdat">R80</a></p> <p><span>2/5/2014</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tdDN2Unk2NUpfQUE/edit">R80.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1LZ5oKq7wLvqwcHyDA4zVsPzNqJga8ts5ZyoJ6V0XPZ0/edit#gid=631842613">R80.googlesheet</a></p> </td> <td> <div>Wobble Quad Control 2</div> <div>Wobble Quad Control 3</div> <div>Wobble Quad Control 4</div> <div>SHAPE Profile - G-G Mismatch - Pilot Run</div> <div>Reversed G-C Multibranch Loop Closing Base Pairs 2</div> <div>SHAPE Profile - U-U Mismatch - Pilot Run 2A</div> <div>SHAPE Profile - U-U Mismatch - Pilot Run 2B</div> <div>SHAPE Profile - A-G Mismatch - Pilot Run 2A</div> <div>SHAPE Profile - A-G Mismatch - Pilot Run 2B</div> <div>Tetraloop Competition Series - GAAA</div> <div>Tetraloop Competition - UUCG</div> <div>Tetraloop Competition Series - UACG</div> <div>Tetraloop Competition Series - GAGA</div> <div>SHAPE Profile - A-A Mismatch - Pilot Run</div> <div>Repeatability - Melted Helix Variation 1</div> <div>Repeatability - Melted Helix Variation 2</div> <div>SHAPE Profile - Most Likely Base Pair C/G</div> <div>Really big loop coil - Classic science toy</div> <div>Intrinsical - Frequency 1</div> <div>Intrinsical - Frequency 8</div> <div>Impossible Folding I</div> <div>Poly (A) Structure Analysis 1</div> <div>New Frontier 3</div> <div>Cobalamin Riboswitches - Shape 0</div> <div>Cobalamin Riboswitches - Shape 1</div> <div>Cobalamin Riboswitches - Shape 2</div> <div>Cobalamin Riboswitches - Shape 3</div> <div>Cobalamin Riboswitches - Shape 5</div> <div>Cobalamin Riboswitches - Shape 11</div> <div>Cobalamin Riboswitches - Shape 12</div> <div>Cobalamin Riboswitches - Shape 14</div> <div>Cobalamin Riboswitches - Shape 19</div> <div>Cobalamin Riboswitches - Shape 23</div> <div>Motif Assembled GAAA tetraloop binders - Shape 0</div> <div>The RFAM Mapping project - Shape 0</div> <div>The RFAM Mapping project - Shape 1</div> <div>The RFAM Mapping project - Shape 2</div> <div>The RFAM Mapping project - Shape 3</div> <div>The RFAM Mapping project - Shape 4</div> <div>The RFAM Mapping project - Shape 5</div> <div>The RFAM Mapping project - Shape 6</div> <div>The RFAM Mapping project - Shape 7</div> <div>The RFAM Mapping project - Shape 8</div> <div>The RFAM Mapping project - Shape 9</div> <div>The RFAM Mapping project - Shape 10</div> <div>The RFAM Mapping project - Shape 11</div> <div>The RFAM Mapping project - Shape 12</div> <div>The RFAM Mapping project - Shape 13</div> <div>The RFAM Mapping project - Shape 14</div> <div>The RFAM Mapping project - Shape 15</div> <div>The RFAM Mapping project - Shape 16</div> <div>The RFAM Mapping project - Shape 17</div> <div>The RFAM Mapping project - Shape 18</div> <div>The RFAM Mapping project - Shape 19</div> <div>The RFAM Mapping project - Shape 20</div> <div>The RFAM Mapping project - Shape 21</div> <div>The RFAM Mapping project - Shape 22</div> <div>The RFAM Mapping project - Shape 23</div> <div>The RFAM Mapping project - Shape 24</div> <div>The RFAM Mapping project - Shape 25</div> <div>The RFAM Mapping project - Shape 26</div> <div>The RFAM Mapping project - Shape 27</div> <div>The RFAM Mapping project - Shape 28</div> <div>The RFAM Mapping project - Shape 29</div> <div>The RFAM Mapping project - Shape 30</div> <div>The RFAM Mapping project - Shape 31</div> <div>The RFAM Mapping project - Shape 32</div> <div>The RFAM Mapping project - Shape 33</div> <div>The RFAM Mapping project - Shape 34</div> <div>The RFAM Mapping project - Shape 35</div> <div>The RFAM Mapping project - Shape 36</div> <div>The RFAM Mapping project - Shape 37</div> <div>The RFAM Mapping project - Shape 38</div> <div>The RFAM Mapping project - Shape 39</div> <div>The RFAM Mapping project - Shape 40</div> <div>The RFAM Mapping project - Shape 41</div> <div>The RFAM Mapping project - Shape 42</div> <div>The RFAM Mapping project - Shape 43</div> <div>The RFAM Mapping project - Shape 44</div> <div>The RFAM Mapping project - Shape 45</div> <div>The RFAM Mapping project - Shape 46</div> <div>The RFAM Mapping project - Shape 47</div> <div>The RFAM Mapping project - Shape 48</div> <div>The RFAM Mapping project - Shape 49</div> <div>The RFAM Mapping project - Shape 50</div> <div>The RFAM Mapping project - Shape 51</div> <div>The RFAM Mapping project - Shape 52</div> <div>The RFAM Mapping project - Shape 53</div> <div>The RFAM Mapping project - Shape 54</div> <div>The RFAM Mapping project - Shape 55</div> <div>The RFAM Mapping project - Shape 56</div> <div>The RFAM Mapping project - Shape 57</div> <div>The RFAM Mapping project - Shape 58</div> <div>The RFAM Mapping project - Shape 59</div> <div>The RFAM Mapping project - Shape 60</div> <div>The RFAM Mapping project - Shape 61</div> <div>The RFAM Mapping project - Shape 62</div> <div>The RFAM Mapping project - Shape 63</div> <div>The RFAM Mapping project - Shape 64</div> <div>The RFAM Mapping project - Shape 65</div> <div>The RFAM Mapping project - Shape 66</div> <div>The RFAM Mapping project - Shape 67</div> <div>The RFAM Mapping project - Shape 68</div> <div>The RFAM Mapping project - Shape 69</div> <div>The RFAM Mapping project - Shape 70</div> <div>The RFAM Mapping project - Shape 71</div> <div>The RFAM Mapping project - Shape 72</div> <div>The RFAM Mapping project - Shape 73</div> <div>The RFAM Mapping project - Shape 74</div> <div>The RFAM Mapping project - Shape 75</div> <div>The RFAM Mapping project - Shape 76</div> <div>The RFAM Mapping project - Shape 77</div> <div>The RFAM Mapping project - Shape 78</div> <div>The RFAM Mapping project - Shape 79</div> <div>The RFAM Mapping project - Shape 80</div> <div>The RFAM Mapping project - Shape 81</div> <div>The RFAM Mapping project - Shape 82</div> <div>The RFAM Mapping project - Shape 83</div> <div>The RFAM Mapping project - Shape 84</div> <div>The RFAM Mapping project - Shape 85</div> <div>The RFAM Mapping project - Shape 86</div> <div>The RFAM Mapping project - Shape 87</div> <div>The RFAM Mapping project - Shape 88</div> <div>The RFAM Mapping project - Shape 89</div> <div>The RFAM Mapping project - Shape 90</div> <div>The RFAM Mapping project - Shape 91</div> <div>The RFAM Mapping project - Shape 92</div> <div>The RFAM Mapping project - Shape 93</div> <div>The RFAM Mapping project - Shape 94</div> <div>The RFAM Mapping project - Shape 95</div> <div>The RFAM Mapping project - Shape 96</div> <div>The RFAM Mapping project - Shape 97</div> <div>The RFAM Mapping project - Shape 98</div> <div>Nando s Zippers - Shape 0</div> <div>Ambiguous Bulges - Shape 0</div> <div>Ambiguous Bulges - Shape 1</div> <div>Ambiguous Bulges - Shape 2</div> <div>Ambiguous Bulges - Shape 3</div> </td> <td> <span>2.217</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R81_0000/ETERNA_R81_0000.rdat">R81</a></p> <p><span>2/4/2014</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tRlBBX0JuRnRRR1E/edit">R81.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1vkuqQ6T7HfppVG3E8ceYqnnmJH4uEpW4mWaqovgHHHI/edit#gid=261987792">R81.googlesheets</a></p> </td> <td> <div>Dimer A - control</div> <div>Small Loops- v. 1</div> <div>SHAPE Profile - G-G Mismatch - Pilot Run 2A</div> <div>SHAPE Profile - G-G Mismatch - Pilot Run 2B</div> <div>SHAPE Profile - A-A Mismatch - Pilot Run 2B</div> <div>Simplify - Mirror version</div> <div>SHAPE Profile - Most Likely Base Pair G/C</div> <div>Early bulge</div> <div>Really big loop coil - control</div> <div>Intrinsical frequency</div> <div>Intrinsically Green</div> <div>Intrinsically Blue</div> <div>Very relaxed multiloop</div> <div>Intrinsical - Frequency 2</div> <div>Intrinsical - Frequency 6</div> <div>Intrinsical - Frequency 7</div> <div>TrpBoundState</div> <div>TrpAltA</div> <div>TrpAltB</div> <div>TrpAltC</div> <div>GNRA/receptor project - Shape 0</div> <div>GNRA/receptor project - Shape 1</div> <div>GNRA/receptor project - Shape 2</div> <div>GNRA/receptor project - Shape 3</div> <div>GNRA/receptor project - Shape 4</div> <div>GNRA/receptor project - Shape 5</div> <div>GNRA/receptor project - Shape 8</div> <div>GNRA/receptor project - Shape 12</div> </td> <td> <span>2.620</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R82_0000/ETERNA_R82_0000.rdat">R82</a></p> <p><span>2/5/2014</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tbHkxZm9rTVJSNVU/edit">R82.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1bZkxAZX3eHoIZiKSpu7M4r6X9r4caEIBdW-gKkdrbok/edit#gid=2042806624">R82.googlesheet</a></p> </td> <td> <div>Improving the Energy Model: Competing Tetraloops Part 1</div> <div>Ziggy 25 (aka Multiloop Test)</div> <div>Reversed G-C Multibranch Loop Closing Base Pairs 3</div> <div>SHAPE Profile - A-C Mismatch - Pilot Run 2A</div> <div>SHAPE Profile - G-A Mismatch - Pilot Run 2B</div> <div>Neck strength analysis 1 of 3 - Strong - alternating GCs.</div> <div>Neck strength analysis 2 of 3 - Medium - alternating AUs.</div> <div>SHAPE Profile - C-C Mismatch - Pilot Run 2B</div> <div>SHAPE Profile - A-A Mismatch - Pilot Run 2A</div> <div>Late bulge</div> <div>Late bulge control</div> <div>Intrinsically Red</div> <div>Intrinsical - Frequency 3</div> <div>Intrinsical - Frequency 4</div> <div>Short Neck and Split Ends</div> <div>Adding some sweet triloops</div> <div>Ribozyme 1: Hammerhead variant</div> <div>JR s Let s Break the Barcode - 2 nt Dangling End Gap</div> <div>JR s Let s Break the Barcode - 3 nt Dangling End Gap</div> <div>Improving the Energy Model: Favoring an Equivalent Structure</div> <div>Improving the Energy Model: 5-Base Hairpin Loops</div> <div>Reproducibility Lab Round 3 - Shape 0</div> <div>Reproducibility Lab Round 3 - Shape 1</div> <div>Reproducibility Lab Round 3 - Shape 2</div> <div>Reproducibility Lab Round 3 - Shape 3</div> <div>Reproducibility Lab Round 3 - Shape 4</div> <div>Reproducibility Lab Round 3 - Shape 5</div> <div>Reproducibility Lab Round 3 - Shape 6</div> <div>Reproducibility Lab Round 3 - Shape 7</div> <div>Reproducibility Lab Round 3 - Shape 8</div> <div>Reproducibility Lab Round 3 - Shape 9</div> <div>Reproducibility Lab Round 3 - Shape 10</div> <div>Reproducibility Lab Round 3 - Shape 11</div> <div>Reproducibility Lab Round 3 - Shape 12</div> <div>Reproducibility Lab Round 3 - Shape 13</div> <div>Reproducibility Lab Round 3 - Shape 14</div> <div>Reproducibility Lab Round 3 - Shape 15</div> <div>Reproducibility Lab Round 3 - Shape 16</div> <div>Reproducibility Lab Round 3 - Shape 17</div> <div>Reproducibility Lab Round 3 - Shape 18</div> <div>Reproducibility Lab Round 3 - Shape 19</div> <div>Reproducibility Lab Round 3 - Shape 20</div> <div>Motif Assembled GAAA tetraloop binders - Shape 0</div> <div>Motif Assembled GAAA tetraloop binders - Shape 1</div> <div>Motif Assembled GAAA tetraloop binders - Shape 2</div> <div>Motif Assembled GAAA tetraloop binders - Shape 4</div> <div>Motif Assembled GAAA tetraloop binders - Shape 6</div> <div>Motif Assembled GAAA tetraloop binders - Shape 7</div> <div>Motif Assembled GAAA tetraloop binders - Shape 8</div> <div>Motif Assembled GAAA tetraloop binders - Shape 10</div> <div>Motif Assembled GAAA tetraloop binders - Shape 11</div> <div>Johan s sequences</div> </td> <td> <span>2.989</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R83_0000/ETERNA_R83_0000.rdat">R83</a></p> <p><span>3/27/2014</span></p> </td> <td> <div>P4-P6 domain Tetrahymena ribozyme was also run,</div> <div>but only in R83, not R83.2 or R83.3</div> <div>R83.xlsx</div> <div><a href="https://docs.google.com/spreadsheets/d/1beXzoHooRytT0VrHabAqtrfdKjotIN5fkrxEd_ejSmk/edit#gid=2084640125">R83.googlesheet</a></div> </td> <td rowspan="3"> <div>Wobble Quad Stability 2</div> <div>Wobble Quad Stability 3</div> <div>Wobble Quad Stability 4</div> <div>Wobble Quad Control 1</div> <div>SHAPE Profile - C-U Mismatch - Pilot Run 2A</div> <div>SHAPE Profile - C-A Mismatch - Pilot Run 2B</div> <div>SHAPE Profile - A-C Mismatch - Pilot Run 2B</div> <div>SHAPE Profile - G-A Mismatch - Pilot Run 2A</div> <div>SHAPE Profile - C-C Mismatch - Pilot Run 2A</div> <div>Early bulge control</div> <div>Intrinsical - Frequency 5</div> <div>Triloop Hairpin and Stem Loop - Helix Stability</div> <div>The G Quadruplex - Round 2</div> <div>New Frontier 4</div> <div>SAM II Riboswitch</div> </td> <td><span>1.946</span> </td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R83_0002/ETERNA_R83_0002.rdat">R83.0002</a></p> <p><span>4/1/2014</span></p> </td> <td> <p> </p> <p>R83.0002.xlsx</p> <p><a href="https://drive.google.com/folderview?id=0B5piCUq-Rq1taHJDekFjWWJqRVE&usp=sharing">R83.0002.googlesheet</a></p> </td> <td> <span>4.907</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R83_0003/ETERNA_R83_0003.rdat">R83.0003</a></p> <p><span>4/3/2014</span></p> </td> <td> <p> </p> <p>R83.0003.xlsx</p> <p><a href="https://drive.google.com/folderview?id=0B5piCUq-Rq1taHJDekFjWWJqRVE&usp=sharing">R83.0003.googlesheet</a></p> </td> <td> <span>5.690</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R84_0000/ETERNA_R84_0000.rdat">R84</a></p> <p><span>4/21/2014</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tZW5CQXJqTmVHX0k/edit">R84.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1VGu6FN-oCYAbdXsxuDHyr_3BL2qgCUH3Fe3l4DHrqgg/edit#gid=751915964">R84.googlesheet</a></p> </td> <td> <div>FMN Binding Site - Rotated</div> <div>SHAPE Profile - C-U Mismatch - Pilot Run 2B</div> <div>SHAPE Profile - Most Likely Base Pair U/A - Variation 1.1</div> <div>Most Likely Base Pair U/A - Variation 1.1B</div> <div>SHAPE Profile - Most Likely Base Pair U/A - Variation 1.3</div> <div>SHAPE Profile - Most Likely Base Pair G/C - Variation 2</div> <div>SHAPE Profile - Most Likely Base Pair G/C - Variation 2B</div> <div>Kinky Bits</div> <div>JR s Let s Break the Barcode - Adjacent Barcode Version</div> <div>The Donkey s Tail</div> <div>A-U Closing Base Pairs - 4.1</div> <div>A-U Closing Base Pairs - 4.2</div> <div>G-U Closing Base Pairs - 4.3</div> <div>G-U Closing Base Pairs - 4.4</div> <div>Motif study: the S-turn</div> <div>Consensus</div> <div>Pure A</div> <div>GA mismatch only</div> <div>G14A</div> <div>Alternative C-C mismatch</div> <div>Alternative U-C mismatch</div> <div>Alternative U-C & A-C mismatches</div> <div>G12A</div> <div>Mad multiloop - Pentaloop 1</div> <div>Pentaloop 2</div> <div>Pentaloop 3</div> <div>Hexaloop 1</div> <div>Hexaloop 2</div> <div>Hexaloop 3</div> <div>Neck-Hairpin Spacing 3</div> <div>Neck-Hairpin Spacing 1</div> <div>Neck-Hairpin Spacing 0</div> <div>Neck-Hairpin Spacing 2</div> <div>Return of the boost</div> <div>Multibranch Loop Terminal Mismatch Stability Pilot - Strand Length 6</div> <div>Multibranch Loop Terminal Mismatch Stability Pilot - Strand Length 5</div> <div>Multibranch Loop Terminal Mismatch Stability Pilot - Strand Length 4</div> <div>Multibranch Loop Terminal Mismatch Stability Pilot - Strand Length 3</div> <div>Multibranch Loop Terminal Mismatch Stability Pilot - Strand Length 2</div> <div>Multibranch Loop Terminal Mismatch Stability Pilot - Strand Length 1</div> <div>Hairpin ribozyme</div> <div>Variant 1</div> <div>Variant 2</div> <div>RNA Transient Structures and pre-miRs - Shape 0</div> <div>RNA Transient Structures and pre-miRs - Shape 1</div> <div>RNA Transient Structures and pre-miRs - Shape 2</div> <div>RNA Transient Structures and pre-miRs - Shape 3</div> <div>RNA Transient Structures and pre-miRs - Shape 4</div> <div>RNA Transient Structures and pre-miRs - Shape 5</div> <div>RNA Transient Structures and pre-miRs - Shape 6</div> <div>RNA Transient Structures and pre-miRs - Shape 7</div> <div>RNA Transient Structures and pre-miRs - Shape 10</div> </td> <td> <span>2.725</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R85_0000/ETERNA_R85_0000.rdat">R85</a></p> <p><span>5/9/2014</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tOGdLOWk4MmxPeU0/edit">R85.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1H8KpPwmNHDeLorRqCFXCv6K9c1cVRKzbrPENJ6EI2FY/edit">R85.googlesheet</a></p> </td> <td> <div>SHAPE Profile - Most Likely Base Pair U/A - Variation 1.2</div> <div>SHAPE Profile - Most Likely Base Pair U/A - Variation 1.4</div> <div>SHAPE Profile - Most Likely Base Pair C/G - Variation 2</div> <div>SHAPE Profile - Most Likely Base Pair C/G - Variation 2B</div> <div>GGG/UCC Wobble Closing Base Pairs - Hexaloop RE</div> <div>GGG/UCC Wobble Closing Base Pairs - Heptaloop</div> <div>5 Hairpin Stem Part 1 - Five Base Pairs + UUCG Tetraloop</div> <div>Stabilise the 1-1-1-1-1 multiloop</div> <div>FMN in zigzag</div> <div>L3-9</div> <div>L3-8</div> <div>L3-7</div> <div>L3-6</div> <div>L3-5</div> <div>L3-4</div> <div>Helix Comparison - 4x4 Loop</div> <div>Helix Comparison - 5x5 Loop</div> <div>Helix Comparison - 6x6 Loop</div> <div>Helix Comparison - Four Base Pair Stem</div> <div>Helix Comparison - Eight Base Pair Stem</div> <div>Helix Comparison - Stem 2 G-U</div> <div>Helix Comparison - Stem 1 G-U</div> <div>New Frontier 5</div> <div>Telephone</div> <div>Effect of Bulge Proximity on RNA Stability</div> <div>Effect of Bulge Proximity on RNA Stability: More Distance</div> <div>FMN Mimic Pilot - (CCUAUC/GAAGG & AGUAUA/UAACA) 1</div> <div>FMN Mimic Pilot - (CCUAUC/GAAGG & AGUAUA/UAACA) 2</div> <div>FMN Mimic Pilot - AGUAUA/UAACA</div> <div>FMN Mimic Pilot - (GUAGUA/GAAAC & AGGAUA/UAAUU)</div> <div>FMN Mimic Pilot - (UGUAUU/GAAGG & UGGAUA/GACGG)</div> <div>FMN Mimic Pilot - (CUGAAC/GACGG & CGUUAC/GGAGG)</div> <div>FMN Mimic Pilot - (AGGAUA/UACUG & AGGAUA/UAAGG)</div> <div>FMN Mimic Pilot - (CUGAGC/GACGG & CGGAUA/GACGG)</div> <div>Unbound</div> <div>Bound - Mimic CCUAUC--GAAGG</div> <div>Bound - Mimic GUAGUA--GAAAC</div> <div>Bound - Mimic UGUAUU--GAAGG</div> <div>Bound - Mimic AGGAUA--UAAUU</div> <div>Bound - Mimic UGGAUA--GACGG</div> <div>Bound - Mimic CUGAAC--GACGG</div> <div>Bound - Mimic AGUAUA--UAACA</div> <div>Bound - Mimic CGUUAC--GGAGG</div> <div>Aptamer secondary structure - Shape 2</div> <div>Aptamer secondary structure - Shape 5</div> <div>Aptamer secondary structure - Shape 6</div> <div>Aptamer secondary structure - Shape 7</div> <div>Aptamer secondary structure - Shape 8</div> <div>Reproducibility Lab 2 - Shape 0</div> <div>Reproducibility Lab 2 - Shape 1</div> <div>Reproducibility Lab 2 - Shape 2</div> <div>Reproducibility Lab 2 - Shape 3</div> <div>Reproducibility Lab 2 - Shape 4</div> <div>Reproducibility Lab 2 - Shape 5</div> <div>Reproducibility Lab 2 - Shape 6</div> <div>Reproducibility Lab 2 - Shape 7</div> <div>Reproducibility Lab 2 - Shape 8</div> <div>Reproducibility Lab 2 - Shape 9</div> <div>Reproducibility Lab 2 - Shape 10</div> <div>Reproducibility Lab 2 - Shape 11</div> <div>Reproducibility Lab 2 - Shape 12</div> <div>Reproducibility Lab 2 - Shape 13</div> <div>Reproducibility Lab 2 - Shape 14</div> <div>Reproducibility Lab 2 - Shape 15</div> <div>Reproducibility Lab 2 - Shape 16</div> <div>Reproducibility Lab 2 - Shape 17</div> <div>Reproducibility Lab 2 - Shape 18</div> <div>Reproducibility Lab 2 - Shape 19</div> <div>Reproducibility Lab 2 - Shape 20</div> <div>Stanford Switch Puzzle</div> </td> <td> <span>2.295</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R86_0000/ETERNA_R86_0000.rdat">R86</a></p> <p><span>6/9/2014</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tU1VnQ19PUDAwYkk/edit">R86.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1aPYbuxWWMxaS7YBe7o57AY6pRiQqgJVyDUFw0agGgVQ/edit#gid=1851533757">R86.googlesheet</a></p> </td> <td> <div>20% Non Watson-Crick Base Pairs - Effortless</div> <div>40% Non Watson-Crick Base Pairs - Medium</div> <div>60% Non Watson-Crick Base Pairs - Heating Up</div> <div>70% Non Watson-Crick Base Pairs - Hard Mode</div> <div>80% Non Watson-Crick Base Pairs - Insanity</div> <div>Hand and Finger Remade - OFF State</div> <div>Hand and Finger Remade - Mimic</div> <div>Simple RNA Switch Remade - OFF State</div> <div>Simple RNA Switch Remade - Mimic</div> <div>Hair Trigger - Sub 2 (Stable) by Brourd: -2.51 Kcal/mol Mimic Bonus</div> <div>Hair Trigger - Sub 2 (Stable) by Brourd: -4.86 Kcal/mol Mimic Bonus</div> <div>Bistable 3 - Mod of Eli by mat747: -2.51 Kcal/mol Mimic Bonus</div> <div>Bistable 3 - Mod of Eli by mat747: -4.86 Kcal/mol Mimic Bonus</div> <div>Identify tRNA Mutants Subject to Alternative RNA Processing - Shape 0</div> <div>Investigation of Alternative Human tRNA Structures - Shape 4</div> <div>Investigation of Alternative Human tRNA Structures - Shape 5</div> <div>Investigation of Alternative Human tRNA Structures - Shape 14</div> <div>Investigation of Alternative Human tRNA Structures - Shape 15</div> <div>Investigation of Alternative Human tRNA Structures - Shape 16</div> <div>Investigation of Alternative Human tRNA Structures - Shape 17</div> <div>Investigation of Alternative Human tRNA Structures - Shape 18</div> <div>Investigation of Alternative Human tRNA Structures - Shape 19</div> <div>Investigation of Alternative Human tRNA Structures - Shape 23</div> <div>Investigation of Alternative Human tRNA Structures - Shape 25</div> <div>Investigation of Alternative Human tRNA Structures - Shape 28</div> <div>Investigation of Alternative Human tRNA Structures - Shape 36</div> <div>Alternative structure space for human tRNAs - Shape 4</div> <div>Alternative structure space for human tRNAs - Shape 5</div> <div>Alternative structure space for human tRNAs - Shape 14</div> <div>Alternative structure space for human tRNAs - Shape 15</div> <div>Alternative structure space for human tRNAs - Shape 16</div> <div>Alternative structure space for human tRNAs - Shape 17</div> <div>Alternative structure space for human tRNAs - Shape 18</div> <div>Alternative structure space for human tRNAs - Shape 19</div> <div>Alternative structure space for human tRNAs - Shape 23</div> <div>Alternative structure space for human tRNAs - Shape 25</div> <div>Alternative structure space for human tRNAs - Shape 28</div> <div>Alternative structure space for human tRNAs - Shape 36</div> </td> <td> <span>3.217</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R87_0001/ETERNA_R87_0001.rdat">R87</a></p> <p><span>8/18/2014</span></p> </td> <td> <p><a title="R87.xlsx" href="https://docs.google.com/file/d/0B5piCUq-Rq1tLWMwZWNFMFdod3M/edit">R87.xlsx</a></p> <p><a title="R87.googlesheet" href="https://docs.google.com/spreadsheets/d/1j62iEdmMGG5QRCzkIPlT5p5Z1fDf7Vm6W_9rBp9E-EU/edit#gid=351139375">R87.googlesheet</a></p> <p> </p> </td> <td rowspan="3"> <div>Lab Entry Level 0 - The Finger lab revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - The Finger lab revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - The Finger lab revisited - Gap size 2</div> <div>Lab Entry Level 2 - The Finger lab modified - Gap size 2</div> <div>Poly (A) Structure Analysis 2</div> <div>Multistate RNA Sequence - 2 Residues</div> <div>Multistate RNA Sequence - 3 Residues</div> <div>Multistate RNA Sequence - 4 Residues</div> <div>Hairpin Loop Comparison Pilot - Shape 0</div> <div>Hairpin Loop Comparison Pilot - Shape 1</div> <div>Hairpin Loop Comparison Pilot - Shape 2</div> <div>Hairpin Loop Comparison Pilot - Shape 3</div> <div>Hairpin Loop Comparison Pilot - Shape 4</div> <div>Hairpin Loop Comparison Pilot - Shape 5</div> <div>Hairpin Loop Comparison Pilot - Shape 6</div> <div>Hairpin Loop Comparison Pilot - Stem Comparison Tests</div> <div>SHAPE Profile - G/A Hairpin Terminal Mismatch and Neighboring Base Pairs GNCgaaaaGNC - Shape 0</div> <div>SHAPE Profile - G/A Hairpin Terminal Mismatch and Neighboring Base Pairs GNCgaaaaGNC - Shape 1</div> <div>SHAPE Profile - G/A Hairpin Terminal Mismatch and Neighboring Base Pairs CNGgaaaaCNG - Shape 0</div> <div>SHAPE Profile - G/A Hairpin Terminal Mismatch and Neighboring Base Pairs CNGgaaaaCNG - Shape 1</div> <div>Multistate RNA - CC/G bulge - Shape 0</div> <div>Cyanocobalamin (vitamin B12) RNA aptamer SHAPE profile - Shape 0</div> <div>Sarcin-ricin vs boosted internal loops - Shape 0</div> <div>Sarcin-ricin vs boosted internal loops - Shape 1</div> <div>Sarcin-ricin vs boosted internal loops - Shape 2</div> <div>Sarcin-ricin vs boosted internal loops - Shape 3</div> <div>Sarcin-ricin vs boosted internal loops - Shape 4</div> <div>Sarcin-ricin vs boosted internal loops - Shape 5</div> <div>Sarcin-ricin vs boosted internal loops - Shape 6</div> <div>2-2 Superboost</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 0</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 1</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 2</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 3</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 4</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 5</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 6</div> <div>Apical Loop Comparison - Dissimilar Stem Sequences - Shape 7</div> <div>Effects of Base Pair Mutations on the RNA Ensemble and Reverse Transcription - Shape 0</div> <div>Effects of Base Pair Mutations on the RNA Ensemble and Reverse Transcription - Shape 1</div> <div>Effects of Base Pair Mutations on the RNA Ensemble and Reverse Transcription - Shape 2</div> <div>Identify tRNA Mutants Subject to Alternative RNA Processing - Shape 0</div> <div>Alternative structure space for human tRNAs - Shape 4</div> <div>Alternative structure space for human tRNAs - Shape 5</div> <div>Alternative structure space for human tRNAs - Shape 14</div> <div>Alternative structure space for human tRNAs - Shape 15</div> <div>Alternative structure space for human tRNAs - Shape 16</div> <div>Alternative structure space for human tRNAs - Shape 17</div> <div>Alternative structure space for human tRNAs - Shape 18</div> <div>Alternative structure space for human tRNAs - Shape 19</div> <div>Alternative structure space for human tRNAs - Shape 23</div> <div>Alternative structure space for human tRNAs - Shape 25</div> <div>Alternative structure space for human tRNAs - Shape 28</div> <div>Alternative structure space for human tRNAs - Shape 36</div> </td> <td> <span>1.004</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R87_0001/ETERNA_R87_0001.rdat">R87.0001</a></p> <p><span>8/21/2014</span></p> </td> <td> <p><a title="R87.xlsx" href="https://docs.google.com/file/d/0B5piCUq-Rq1tLWMwZWNFMFdod3M/edit">R87.xlsx</a></p> <p><a title="R87.googlesheet" href="https://docs.google.com/spreadsheets/d/1j62iEdmMGG5QRCzkIPlT5p5Z1fDf7Vm6W_9rBp9E-EU/edit#gid=2119853601">R87.googlesheet</a></p> </td> <td> <span>1.731</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R87_0002/ETERNA_R87_0002.rdat">R87.0002</a></p> <p><span>8/21/2014</span></p> </td> <td> <p>R87.xlsx</p> <p><a href="https://docs.google.com/spreadsheets/d/1EtfteOQu8HfDMrRmEEuBr2m_hPNe-7N78_7d9URu40A/edit#gid=327852367">R87.googlesheet</a></p> </td> <td><span>1.109</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R88_0000/ETERNA_R88_0000.rdat">R88</a></p> <p><span>8/27/2014</span></p> </td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tZXlyTVBXd1djbFk/edit">R88.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1XOxVpvbz1VeIxvKelTUZdAf51nnnJL6TsJWaxB7OD08/edit">R88.googlesheet</a></p> </td> <td rowspan="2"> <div>Lab Entry Level 0 - The Cross lab revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - The Cross lab revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - The Cross lab revisited - Gap size 2</div> <div>Lab Entry Level 2 - The Cross lab modified - Gap size 2</div> </td> <td> <span>0.918</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/EtERNA_R88_0002/EtERNA_R88_0002.rdat">R88.0002</a></td> <td> </td> <td><span>5.627</span></td> </tr> <tr> <td> <p><a href="http://rmdb.stanford.edu/repository/detail/ETERNA_R88_0003">R</a>89</p> </td> <td> <p><a title="R89.xlsx" href="https://docs.google.com/file/d/0B5piCUq-Rq1teXl5b0Qyd0g3bHM/edit">R89.xlsx</a></p> <p><a title="R89.googlesheet" href="https://docs.google.com/spreadsheets/d/1TSvx9X3JhCbhEMRXZCnaVLrdRKsw2SI0mzLzUMSO1GE/edit#gid=1630114522">R89.googlesheet</a></p> </td> <td> <div>Switch Cloud Lab: The Next Generation 4 - OFF</div> <div>Switch Cloud Lab: The Next Generation 4 - MIMIC</div> <div>Hair Trigger - Sub 2 (Stable) by Brourd: -2.51 Kcal/mol Mimic Bonus R2</div> <div>Bistable 3 - Mod of Eli by mat747: -2.51 Kcal/mol Mimic Bonus R2</div> <div>Bistable 3 - Double Trouble by Darkfire47: -2.51 Kcal/mol Mimic Bonus</div> <div>Hair Trigger - Reresub 3 (Unstable) by Brourd: -2.51 Kcal/mol Mimic Bonus</div> <div>Pseudo-Titration Experiment: Lines - Errazaarge by ViennaUCT</div> <div>Lab Entry Level 0 - Bulge Cross revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - Bulge Cross revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - Bulge Cross lab revisited - Gap size 2</div> <div>Lab Entry Level 2 - Bulge Cross lab modified - Gap size 2</div> </td> <td><span>3.149</span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R90_0000/ETERNA_R90_0000.rdat">R90</a><span style="white-space: pre;"> </span></td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tbmhLMEY2bk15Y28/edit">R90.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/15bfVNN5iC3cseca63yOKFTWyqXUIwyosuThZYnoMGsA/edit#gid=1464067414">R90.googlesheet</a></p> </td> <td> <div>Lab Entry Level 0 - Bend and Ends Sampler revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - Bend and Ends Sampler revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - Bend and Ends Sampler revisited - Frozen shape with gap size 2</div> <div>Lab Entry Level 2 - Bends and Ends Sampler modified - Gap size 2</div> </td> <td><span><span>1.037</span></span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R91_0000/ETERNA_R91_0000.rdat">R91</a><span style="white-space: pre;"> </span></td> <td> <p><a href="https://drive.google.com/file/d/0B5piCUq-Rq1tWGREN3c3MzNaWXc/edit">R91.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1ts8z2Cua6tWd4C9LkybBRYLniULq8eI6S4BpwIanWso/edit#gid=974575204">R90.googlesheet</a><span style="white-space: pre;"> </span></p> </td> <td> <div>Lab Entry Level 0 - The Asymmetry lab revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - The Asymmetry lab revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - The Asymmetry lab revisited - Gap size 2</div> <div>Lab Entry Level 2 - The Asymmetry lab modified - Gap size 2</div> <div>S1-KL1</div> <div>S1-KL1-noGU</div> <div>S1-KL-negative</div> <div>S1-KL-1S72_423</div> <div>S1-KL-new_A</div> <div>S1-KL-new_B</div> <div>S2-KL1</div> <div>S2-KL1-noGU</div> <div>S2-KL-negative</div> <div>S2-KL-1S72_423</div> <div>S2-KL-new_A</div> <div>S2-KL-new_B</div> <div>4/4 Base Pairs 5</div> <div>5/5 Base Pairs 5</div> <div>6/6 Base Pairs 5</div> <div>7/7 Base Pairs 5</div> <div>4/4 Base Pairs 3</div> <div>5/5 Base Pairs 3</div> <div>6/6 Base Pairs 3</div> <div>7/7 Base Pairs 3</div> <div>Shift 4/4 Base Pairs 5</div> <div>Shift 5/4 Base Pairs 5</div> <div>Shift 6/4 Base Pairs 5</div> <div>Shift 5/5 Base Pairs 3</div> <div>Shift 6/5 Base Pairs 3</div> <div>Shift 7/5 Base Pairs 3</div> </td> <td><span><span>2.364</span></span></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R91_0000/ETERNA_R91_0000.rdat">R</a>92</td> <td> <p><a href="https://docs.google.com/file/d/0B5piCUq-Rq1tTWxKWnV0bXBmb2M/edit">R92.xlsx</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1LiIZqNPklChW7ffHAtNj-dDFYzGHh8xo40HAixbTrVY/edit#gid=1260904566">R92.googlesheet</a></p> </td> <td> <div>Lab Entry Level 0 - The Backwards C lab revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - The Backwards C lab revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - The Backwards C lab revisited - Gap size 2</div> <div>Lab Entry Level 2 - The Backwards C lab modified - Gap size 2</div> <div>4 x 4 TEP Riboswitch 5</div> <div>5 x 5 TEP Riboswitch 5</div> <div>6 x 6 TEP Riboswitch 5</div> <div>4 x 4 TEP Riboswitch 3</div> <div>5 x 5 TEP Riboswitch 3</div> <div>6 x 6 TEP Riboswitch 3</div> <div>Shift 5 x 5 TEP Riboswitch 5</div> <div>Shift 6 x 5 TEP Riboswitch 5</div> <div>Shift 7 x 5 TEP Riboswitch 5</div> <div>Shift 5 x 5 TEP Riboswitch 3</div> <div>Shift 6 x 5 TEP Riboswitch 3</div> <div>Shift 7 x 5 TEP Riboswitch 3</div> <div>Structure Competition 3x3 v1</div> <div>Structure Competition 3x3 v2</div> <div>Structure Competition 2x2 v1</div> <div>Structure Competition 2x2 v2</div> <div>Structure Competition 1x1 v1</div> <div>Structure Competition 1x1 v2</div> <div>Structure Competition 0x0 v1</div> <div>Structure Competition 0x0 v2</div> <div>TEP Aptamer Chemical Mapping Footprint</div> <div>TEP Aptamer Chemical Mapping Footprint 2</div> <div>TEP Aptamer Chemical Mapping Footprint 3</div> </td> <td>6.407<br /></td> </tr> <tr> <td><a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R91_0000/ETERNA_R91_0000.rdat">R</a>93</td> <td><a href="https://docs.google.com/spreadsheets/d/1OOxUZVW_dJ2wzrjHBIZcBZgkPMn0HwLqOVc25PO4cVU/edit#gid=909477128">R93.googlesheet</a></td> <td> <div>binary capture</div> <div>Control II - Intermolecular KL</div> </td> <td>27.251</td> </tr> <tr> <td>R94<a href="http://rmdb.stanford.edu/site_media/rdat_files/ETERNA_R91_0000/ETERNA_R91_0000.rdat"></a></td> <td><a href="https://docs.google.com/spreadsheets/d/18uqGWDnagrbGpa-gOO7ZYJPuirE8uTYbv0D_gK3aJtw/edit?usp=sharing">R94.googlesheet</a><a href="https://docs.google.com/spreadsheets/d/1OOxUZVW_dJ2wzrjHBIZcBZgkPMn0HwLqOVc25PO4cVU/edit#gid=909477128"></a></td> <td> <div>Three Branch Junction - AAAUAAA</div> <div>Three Branch Junction - Sequence Mutation 1</div> <div>Three Branch Junction - Sequence Mutation 2</div> <div>Three Branch Junction - Sequence Mutation 3</div> <div>Three Branch Junction - Structure Mutation 1</div> <div>Three Branch Junction - Structure Mutation 2</div> <div>External Loop Test</div> <div>Hairpin Loop Test</div> <div>Multibranch Loop Test</div> <div>88-nt</div> <div>72-nt</div> <div>Lab Entry Level 0 - Chalk Outline lab revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - Chalk Outline lab revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - Chalk Outline lab revisited - Gap size 2</div> <div>Lab Entry Level 2 - Chalk Outline lab modified - Gap size 2</div> <div>Design your own Kissing-Loop</div> <div>Control I - Parallel Crossover KL</div> <div>Control II - Intermolecular KL</div> <div>Six of One Mod</div> <div>Solutions Aplenty by Mayanne</div> <div>Pentaloop by Hyphema</div> <div>Rational Design by ElNando888</div> <div>Mod of Jandersonlee s Flip Turn 6-4 - Mark IV (split further) by Jieux</div> <div>Collage by Hyphema</div> <div>Slip Loop 5-4 by Jandersonlee</div> <div>Straighten It 3 by Starryjess</div> <div>Branch Zipper by codygeary</div> <div>Can t Score This 6x6 by Jnicol</div> <div>Mod of Barely Score This 6x5 by Jnicol</div> <div>Mod of Cross Section by Starryjess</div> <div>Mod of 1x1 Loop Experiment by Jieux</div> <div>Lab Entry Level 0 - Tilted picture of running man revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - Tilted picture of running man revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - Tilted picture of running man revisited - Gap size 2</div> <div>Lab Entry Level 2 - Tilted picture of running man modified - Gap size 2</div> <div>GgaC/GgaC vs GagC/GagC 1</div> <div>GgaC/GgaC vs GagC/GagC 2</div> <div>GgaC/GgaC vs GagC/GagC 3</div> <div>GgaC/GgaC vs GagC/GagC 4</div> <div>GgaC/GgaC vs GagC/GagC 5</div> <div>GgaC/GgaC vs GagC/GagC 6</div> <div>GgaC/GgaC vs GagC/GagC 7</div> <div>GgaC/GgaC vs GagC/GagC 8</div> <div>GgaC/GgaC vs GagC/GagC 9</div> <div>GgaC/GgaC vs GagC/GagC 10</div> <div>GgaC/GgaC vs GagC/GagC 11</div> <div>GgaC/GgaC vs GagC/GagC 12</div> <div>GgaC/GgaC vs GagC/GagC 13</div> <div>GagC/GagC vs GgaC/GgaC 1</div> <div>GagC/GagC vs GgaC/GgaC 2</div> <div>GagC/GagC vs GgaC/GgaC 3</div> <div>GagG/CagC vs GgaG/CgaC</div> <div>GgaG/CgaC vs GagG/CagC</div> <div>GgaC/GgaC vs GagC/GagC 1B</div> <div>GagC/GagC vs GgaC/GgaC 1B</div> </td> <td> <span>3.347</span></td> </tr> <tr> <td>R95</td> <td><a href="https://docs.google.com/spreadsheets/d/1WsLYHXE0EhMDBYC6WDsegfspDzenkGcLRgqdH1CeBJ0/edit?usp=sharing">R95.googlesheet</a></td> <td> <div>Lab Entry Level 0 - Water Strider revisited - Frozen shape with gap size 0</div> <div>Lab Entry Level 0 - Water Strider revisited - Frozen shape with gap size 4</div> <div>Lab Entry Level 1 - Water Strider revisited - Gap size 2</div> <div>Lab Entry Level 2 - Water Strider modified - Gap size 2</div> </td> <td><span>5.067</span></td> </tr> <tr> <td>R96</td> <td> <p><a href="https://docs.google.com/spreadsheets/d/1Ut_h4cFSv6lq92omYzlh7EDYHRq6cdxk4ML5FwRWrks/edit#gid=1381367789">R96.googlesheet</a></p> <p><a href="https://www.google.com/fusiontables/DataSource?docid=1etJpvI3xd2g0p4ipvRYZkwlvmMa8YALwrkyE9VwU#rows:id=1">R96.fusion table</a></p> </td> <td> <div>Same State 1</div> <div>Same State 2</div> <div> <div>Same State NG 1</div> <div>Same State NG 2</div> </div> <div>Same State NG 3</div> <div> <div>Exclusion 1</div> <div>Exclusion 2</div> <div>Exclusion 3</div> <div>Exclusion 4</div> <div> <div>Brourd's Mod of Exclusion 4</div> Exclusion 5</div> <div>Exclusion 6</div> </div> <div><span>Sensor for hsa-mir-208a</span></div> <div><span><span>Sensor v2, turn-off variant</span></span></div> <div><span><span><span>Sensor v2, turn-off variant 2</span></span></span></div> <div><span><span><span> <div>Sensor v3, turn-off variant 1</div> <div>Sensor v3, turn-off variant 2</div> </span></span></span></div> </td> <td><span> </span></td> </tr> <tr> <td>R97</td> <td> <p><a href="https://docs.google.com/spreadsheets/d/1LbhYe6lcah2SxvjTDBRpa0-vGisBLkePyxiOf1L5x9w/edit#gid=72531823">R97.googlesheet</a></p> <p><a href="https://drive.google.com/file/d/0B_N0OA9NROPGb0N1Y2J4aWJtRWM/view">R97.xlsx</a></p> <p><a href="https://www.google.com/fusiontables/data?docid=1jzs1Tqi-HAkjdfeEEErQf5vBJKYdP0U9HIp_kKdh#rows:id=1">R97.fusion table</a></p> <p><a href="https://docs.google.com/spreadsheets/d/1Ey5LWho73p9dG2-iCjW6wMjJeouPEIdE1l0GrT7Shrw/edit?usp=sharing">R97ExclusionsWithDesignerAndLink.googlesheet</a></p> <p><a href="https://www.google.com/fusiontables/data?docid=1BvgXW46kaD8ZtMmy4h-tMDs5ljqd_vBusbZ1KXsu">R97.Meechl's Exclusion Plus - Fusion Table</a></p> <p><a href="http://tiny.cc/Eterna_R97_Fusion" target="_blank">Most Recent Fusion Table for R97</a> (hopefully)</p> </td> <td> <div>Brourd's Mod of Exclusion 4</div> <div>Exclusion 1</div> <div>Exclusion 2</div> <div>Exclusion 3</div> <div>Exclusion 4</div> <div>Exclusion 5</div> <div>Exclusion 6</div> <div><span>Sensor, turn-off variant 1</span></div> </td> <td> </td> </tr> <tr> <td> </td> <td> <p><a href="http://tiny.cc/Eterna_R98_Fusion">R98 NG Fusion Table</a></p> </td> <td> </td> <td> </td> </tr> <tr> <td> </td> <td> </td> <td> </td> <td> </td> </tr> <tr> <td>R100</td> <td><a href="https://docs.google.com/spreadsheets/d/17_lll3raX5RLtxfvw1t_7fzVmXvWuMrS3jGaLELN6MI/edit#gid=862341713" target="_blank">R100 google spreadsheet</a></td> <td> </td> <td> </td> </tr> <tr> <td>R101</td> <td><a href="https://www.google.com/fusiontables/data?docid=1cn5vNqm_rTKqglzHDkPgXr0mxK-h-byVPp4lNFy-#rows:id=1">R101 FMN MS2 Riboswitch Structure, with Switch Graphs</a></td> <td> </td> <td> </td> </tr> <tr> <td>R102</td> <td><a href="https://www.google.com/fusiontables/data?docid=1cn5vNqm_rTKqglzHDkPgXr0mxK-h-byVPp4lNFy-#rows:id=1"></a></td> <td> </td> <td> </td> </tr> <tr> <td>R103</td> <td><a href="https://docs.google.com/spreadsheets/d/13zbKsq6EGXDu8diHL2bfefuj8WG2umgsK6oRaLtJIC0/edit#gid=884747332" target="_blank">R103 Google spreadsheet</a></td> <td> </td> <td> </td> </tr> </tbody> </table> <p> </p> <h3>Lab Data Resources</h3> <p>Players and developers have made valuable collections of lab data.</p> <p><a href="https://docs.google.com/spreadsheets/d/19sbn3nI2LkV1FlUvDQW_i5SKQeC2qWB_DkGsM2f_8-E/edit?usp=sharing">Signal to noise averages per lab</a> by [[User:Meechl|Meechl]]</p> <p><a href="https://docs.google.com/spreadsheets/d/1PXg1EBYEuHzozfkKhnaVJHN9RDqhdpRVbtCTPpmcVuI/edit#gid=1284226480">Signal to noise averages per round</a> by [[User:Meechl|Meechl]]</p> <p><a href="https://drive.google.com/folderview?id=0B5piCUq-Rq1taHJDekFjWWJqRVE&usp=sharing">Cloud Lab Data</a> by [[User:Meechl|Meechl]]</p> <p><a href="https://docs.google.com/spreadsheets/d/1PXg1EBYEuHzozfkKhnaVJHN9RDqhdpRVbtCTPpmcVuI/edit?usp=sharing">All Rounds</a> by [[User:Meechl|Meechl]]</p> <p><a href="/wiki/index.php5?title=List_of_EteRNA_Labs">List of past labs</a> by <span>[[User:Omei|Omei]]</span></p> <p><a href="https://www.google.com/fusiontables/DataSource?docid=1LLNrkPyS_mYD1yNk8FbTbtbhXAzo-_P09fGR-wHx#rows:id=1">All Rounds - All the data</a> - Fusion table by [[User:Omei|Omei]]</p> <p><a href="https://docs.google.com/spreadsheets/d/1asssV-NZEnid4XBRrKq9sNzixPLSVpYrddOPyGPJKTQ/edit#gid=390422821">Lab Summary - Round data</a> by developers</p> <p><a href="https://docs.google.com/spreadsheets/d/1MR13Dr8hKMwSuc6YLIkFo29VLIxW7UMH6SjI3bfhBgU/edit#gid=55428754">Synthesized Labs - Lab data</a> by developers</p> <p><a href="https://drive.google.com/#folders/0B0RBfaX8rvhLcG5fV0Q1WW5URjA">Das Lab Files</a> by developers and [[User:Omei|Omei]] </p> <p><a href="/wiki/index.php5/File:Thoughts-on-labs2015-01-07_salish99-V02.pdf">Comments on MS2</a> round 1 lab results by [[User:Salish99|Salish99]]</p> <p><a href="https://docs.google.com/spreadsheets/d/1Tn1wfCayDf9gyrGrRVi-TnQ9G066NC2R1f2e5pDFUWw/edit?usp=sharing">MS2 Spreadsheet</a> by [[User:Meechl|Meechl]]</p> <p><a href="https://www.google.com/fusiontables/DataSource?docid=1r_UZ4HRiPOVt6b2pYG1isjWXiVFhuV246ujjk9tJ#rows:id=1">Fusion Table for MS2 Riboswitches on Chip (Round 1)</a> by [[User:Omei|Omei]]</p> <p> </p> <h3>Fusion Table Resources</h3> <p><a href="https://docs.google.com/document/d/1VfO2aJeYmwm4Jm09QNa3b_w3ffA63oGrDO7exgu3544/edit">Intro To Fusion Tables</a> by <span>[[User:Eli Fisker|Eli Fisker]]</span></p> <p><span><a href="https://docs.google.com/document/d/1LfCX9pbguzR5OtgYQDakxMmzViRg7WvJKCuj1_kc0s0/edit">Variations On Maslow Design, Round 2</a> by [[User:Omei|Omei]]</span></p> <p><span><a href="https://docs.google.com/document/d/1njL7Q71BefafiGT__NDsm2xHEMmgsJXsxz2vWxUSFTw/edit#heading=h.k4rxxqhjliu6">Creating A Nearby Solutions Fusion Table</a> by <span><span>JandersonLee</span></span></span></p> <p> </p> <p>==See Also==</p> <ul> <li>[http://eternawiki.org/wiki/index.php5/Player-Created_Guides#Lab_Guides Lab guides]</li> <li>[[Illumina Sequencing]]</li> <li>[https://docs.google.com/document/d/1LeA24uhyX_1dCkkecBvhmRB2Bb45rLA-kOZ_beFew0k/edit# General lab info and lab tech details]</li> </ul>
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