| A | B | C | D | E | F | G | H | I | J | K | L | M | N | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | EMPIAR-10227 | Species | Strain | Genotype | Treatment | Phenotype | Sample | Instrument(s) | KeV(s) | Camera(s) | Other EMPIAR | Details are in these papers | |||
2 | US1363_G1 | S. cerevisiae | US1363 | MATa bar1(unmarked) his3 leu2 trp1 ura3 | α-factor arrest | arrest in G1 | cryosections | Titan Krios | 300 | Falcon II | 10062 | Chen, 2016 | Liang, 2012 | ||
3 | US1363_nocodazole | S. cerevisiae | US1363 | MATa bar1Δ ade2-1 can1-100 leu2-3 his3-11 ura3 trp1-1 (Wild type) | nocodazole treatment | arrest in prometaphase | cryosections | Titan Krios | 300 | Falcon II | 10159 | Ng, 2018 | Liang, 2012 | ||
4 | US8133_nocodazole | S. cerevisiae | US8133 | MATa bar1-1, ura3-1, leu2-3,112, his3-11, can1-100, ade2-1 Dam1-GFP:TRP1 | nocodazole treatment | arrest in prometaphase; Dam1p-GFP | cryosections | Titan Krios | 300 | Falcon II | 10159 | Ng, 2018 | Ng, 2018 | ||
5 | US1375_metaphase | S. cerevisiae | US1375 | MATa ura3 his3 cdc20Δ:LEU2 GAL-CDC20::TRP1 | 1. α-factor arrest 2. α-factor washout 3. wait 3 hours 40 minutes | arrest @ metaphase | cryosections | Titan Krios | 300 | Falcon II | 10062, 10159 | Chen, 2016 | Ng, 2018 | Krishnan, 2004 | |
6 | US4780_TEV-cohesin | S. cerevisiae | US4780 | MATa, MET3-HA-CDC20: URA3, scc1D:HIS3, SCC1TEV268-HA3-LEU2, GAL-NLS-myc9-TEV protease-NLS2::TRP1, tetR-GFP: HIS3 | galactose | metaphase, no cohesion | cryosections | Titan Krios | 300 | Falcon II | 10159 | Ng, 2018 | Ng, 2018 | ||
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8 | Graphical summaries | ||||||||||||||
9 | Datasets indicated in red text | ||||||||||||||
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11 | Feedback form | ||||||||||||||
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23 | Useful commands | ||||||||||||||
24 | unzip all data in directory "US1363_G1" | lbunzip2 US1363_G1_tilt/*.bz2 | |||||||||||||
25 | load tilt series numbered 010 to 019 in slicer | 3dmod -S US1363_G1_tomo/14oct31a__01*.rec | |||||||||||||
26 | load many many tilt series w/o hitting max memory | 3dmod -bin 3 14oct31_*.mrc | |||||||||||||
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28 | Tutorials & tools | ||||||||||||||
29 | Cryo-EM basics | Caltech cryo-EM course | An online introductory course taught by Grant Jensen | ||||||||||||
30 | Cryo-EM advanced | EM-University | Includes the above videos and more; taught by Matthijn Vos and Grant Jensen | ||||||||||||
31 | Software | IMOD | The IMOD package contains both Etomo (reconstruction) and 3dmod (tutorial), along with many other command-line tools | ||||||||||||
32 | Reconstruction | Etomo text tutorial | |||||||||||||
33 | Reconstruction | Etomo video tutorial | |||||||||||||
34 | Visualization | 3dmod tutorial | |||||||||||||
35 | Reconstruction & subtomogram analysis | IMOD RML workshop | Additional tutorial data | ||||||||||||
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37 | Tools & info from our lab | ||||||||||||||
38 | Our lab | https://www.anaphase.org/ | |||||||||||||
39 | Useful scripts | https://github.com/anaphaze/ot-tools | Note: these scripts have depencies on cryo-EM software dependencies | ||||||||||||
40 | "Noise" files | https://www.ebi.ac.uk/pdbe/emdb/empiar/entry/10179/ | Used for CTF fitting and phase flipping | ||||||||||||
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