<div dir="ltr"><br clear="all"><div><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><div><div><span style="font-size:13px">Two Project Scientist positions are available in my group in the </span><a href="http://biosciences.lbl.gov/divisions/mbib/" target="_blank" style="font-size:13px;font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;text-decoration:none"><span style="vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><u><font color="#1155cc"><font face="arial">Molecular Biophysics and Integrated Bioimaging</font></font></u></span></a><span style="font-size:13px;color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial"> (MBIB) Division </font></span><span style="font-size:13px">at Lawrence Berkeley National Lab.</span><div style="font-size:13px"><br></div><div style="font-size:13px"><div title="" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif"><span title="" style="color:rgb(212,98,8)"><b>Bioimaging Project Scientist</b></span></div><div title="" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;font-size:11px"><br></div><div title=""><span title="" style="display:inline;padding:0px"><font size="2"><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="font-weight:700;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial">Position Summary: </font></span></p><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;background-color:transparent"><font face="arial"><font color="#000000" face="helvetica neue, arial, verdana, sans-serif"><span style="white-space:pre-wrap">We have an exciting opportunity for a Bioimaging Project Scientist who will apply neuromorphic computing techniques to structural biology problems in X-ray diffraction, CryoEM, and CryoET.  This will be a cross-disciplinary effort between MBIB and </span></font><font color="#000000"><span style="white-space:pre-wrap">the</span></font><font color="#000000" face="helvetica neue, arial, verdana, sans-serif"><span style="white-space:pre-wrap"> Computational Research (CRD) Division at Lawrence Berkeley National Laboratory.  The research group will include investigators Nick Sauter (X-ray Crystallography), Karen Davies (CryoEM/ET), and Chao Yang (Scalable Solvers).</span></font></font></span></p><br><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="font-weight:700;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial">Specific Responsibilities:</font></span></p><ul style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;margin-top:0pt;margin-bottom:0pt"><li dir="ltr" type="disc" style="margin-left:15px;font-family:arial;vertical-align:baseline;background-color:transparent"><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Investigate how to apply deep learning algorithms to specific data processing and data interpretation problems in structural biology. </span></p></li><li dir="ltr" type="disc" style="margin-left:15px;font-family:arial;vertical-align:baseline;background-color:transparent"><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Implement convolutional neural network (CNN) code on neuromorphic computing hardware such as the IBM TrueNorth chip.  Example problems include the identification of positive diffraction events in X-ray free-electron laser diffraction, conformational classification in CryoEM single particle reconstruction, and the identification of 3D sections for CryoET subtomogram averaging. </span></p></li><li dir="ltr" type="disc" style="margin-left:15px;font-family:arial;vertical-align:baseline;background-color:transparent"><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Use tools such as MatConvNet, CAFFE, THEANO or TensorFlow to construct and train CNNs that can be used to optimally classify experimental data.  </span></p></li></ul><br><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="font-weight:700;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial">Required Qualifications:</font></span></p><ul style="font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;margin-top:0pt;margin-bottom:0pt"><li dir="ltr" type="disc" style="margin-left:15px;font-family:arial;vertical-align:baseline;background-color:transparent"><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;white-space:pre-wrap"><font color="#000000">Research experience in Structural Biology, with expertise in allied fields such as Bioinformatics, Mathematics, Computer Science, or Engineering (Ph.D. + 3 years or equivalent)</font></span></p></li><li dir="ltr" type="disc" style="margin-left:15px;color:rgb(0,0,0);font-family:arial;vertical-align:baseline;background-color:transparent"><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Strong background in image analysis and machine learning, including neural networks.</span></p></li><li dir="ltr" type="disc" style="margin-left:15px;color:rgb(0,0,0);font-family:arial;vertical-align:baseline;background-color:transparent"><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Working knowledge of image classification and/or other image processing techniques.</span></p></li><li dir="ltr" type="disc" style="margin-left:15px;color:rgb(0,0,0);font-family:arial;vertical-align:baseline;background-color:transparent"><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Proficient programming skills in MATLAB and/or Python.</span></p></li><li dir="ltr" type="disc" style="margin-left:15px;color:rgb(0,0,0);font-family:arial;vertical-align:baseline;background-color:transparent"><span style="white-space:pre-wrap;background-color:transparent">Working knowledge of performance optimization for scientific codes.</span><br><p dir="ltr" style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"></p></li></ul></font><p dir="ltr" style="color:rgb(0,0,0);font-family:arial;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><br></p><p class="MsoNormal" style="margin-top:6pt"><b style="color:rgb(212,98,8);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif">Algorithm Developer Project Scientist</b></p><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="font-weight:700;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial"><br></font></span></p><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="font-weight:700;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial">Position Summary: </font></span></p><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="color:rgb(34,34,34);font-family:Arial">We are seeking an</span><span style="color:rgb(34,34,34);font-family:Arial"> </span><span style="color:rgb(34,34,34);font-family:Arial">algorithm</span><span style="color:rgb(34,34,34);font-family:Arial"> </span><span style="color:rgb(34,34,34);font-family:Arial">developer</span><span style="color:rgb(34,34,34);font-family:Arial"> </span><span style="color:rgb(34,34,34);font-family:Arial">for the increasingly complex analysis of large diffraction datasets in structural biology.  Current projects utilize XFEL crystallography and spectroscopy to investigate the photosynthetic mechanism of water splitting and to probe other metalloenzyme reactions.  We also wish to test whether diffuse scattering can reveal correlated atomic motions in crystals.  Many problems remain to be solved, including the details of how to optimally merge datasets from thousands of crystals.  Our software development projects (including packages such as</span><span style="color:rgb(34,34,34);font-family:Arial"> </span><a href="http://dials.lbl.gov/" target="_blank" style="font-family:Arial">DIALS</a><span style="color:rgb(34,34,34);font-family:Arial"> </span><span style="color:rgb(34,34,34);font-family:Arial">and</span><span style="color:rgb(34,34,34);font-family:Arial"> </span><a href="http://cci.lbl.gov/xfel" target="_blank" style="font-family:Arial">cctbx.xfel</a><span style="color:rgb(34,34,34);font-family:Arial">) have been highlighted in several high-impact publications listed</span><span style="color:rgb(34,34,34);font-family:Arial"> </span><a href="http://biosciences.lbl.gov/profiles/nicholas-sauter" target="_blank" style="font-family:Arial"><span style="color:rgb(16,60,192)">HERE</span></a><span style="color:rgb(34,34,34);font-family:Arial">.</span></p><p class="MsoNormal"><span style="font-family:Arial;color:rgb(26,26,26)"> </span></p><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="font-weight:700;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial">Specific Responsibilities:</font></span></p><ul style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;margin-top:0pt;margin-bottom:0pt"><li style="margin-left:15px"><span style="white-space:pre-wrap;background-color:transparent;font-family:arial">Continue work on the DIALS data integration suite.</span><br></li><li style="margin-left:15px"><span style="font-family:arial;vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Test new algorithms for optimally characterizing and merging data from serial crystallography experiments.</span><br></li><li style="margin-left:15px"><span style="font-family:arial;vertical-align:baseline;white-space:pre-wrap;background-color:transparent">Analyze anomalous scattering from metalloenzymes using XFEL diffraction.</span></li><li type="disc" style="margin-left:15px;font-family:arial;vertical-align:baseline;background-color:transparent"><span style="white-space:pre-wrap;background-color:transparent">Investigate whether diffuse scattering can reveal correlated atomic motions in crystals.</span><br><p style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"></p></li></ul><br><p dir="ltr" style="color:rgb(0,0,0);font-family:&#39;helvetica neue&#39;,arial,verdana,sans-serif;line-height:1.38;margin-top:0pt;margin-bottom:0pt"><span style="font-weight:700;vertical-align:baseline;white-space:pre-wrap;background-color:transparent"><font face="arial">Required Qualifications:</font></span></p><p style="line-height:1.38;margin-top:0pt;margin-bottom:0pt"></p><ul><li style="margin-left:15px"><font color="#000000" face="arial" style="color:rgb(0,0,0)"><span style="white-space:pre-wrap">E</span></font><span style="font-family:Arial;color:rgb(26,26,26)">xpertise in one or more computational techniques including, but not limited to, ray tracing to test underlying physical models of the diffraction, Bayesian approaches for refining model parameters, macromolecular modeling and refinement, neural networks for interpreting image features, as well as signal processing and denoising methods.  </span><br></li><li style="margin-left:15px"><span style="font-family:Arial">Extensive data analysis experience in crystallography or from more general bioimaging backgrounds are welcome. </span></li><li style="margin-left:15px"><span style="font-family:Arial">We particularly encourage strong mathematical intuition and a track record of bringing new ideas and tools to fruition, as evidenced through written publication and clear presentation.</span></li></ul><p></p><p dir="ltr" style="color:rgb(0,0,0);font-family:arial;line-height:1.38;margin-top:0pt;margin-bottom:0pt"></p><div><div dir="ltr"></div></div><p></p><p class="MsoNormal"><span style="font-family:Arial;color:rgb(26,26,26)">Candidates should send an expression of interest, CV, and list of three references</span><span style="font-family:Arial"> to Nick Sauter, <a href="mailto:nksauter@lbl.gov" target="_blank">nksauter@lbl.gov</a><i>. </i></span><span style="font-family:&#39;Helvetica Neue&#39;">Further details are posted at </span><span style="font-size:small"><a href="https://lbl.taleo.net/careersection/2/jobdetail.ftl?lang=en&amp;job=82554" target="_blank">https://lbl.taleo.net/careersection/2/jobdetail.ftl?lang=en&amp;job=82554</a>.</span></p><p class="MsoNormal"><span style="font-size:13pt;font-family:Arial"></span></p></span></div><div><div data-smartmail="gmail_signature"><div dir="ltr"><div><br></div><div>Nicholas K. Sauter, Ph. D.<br>Computer Staff Scientist, Molecular Biophysics and Integrated Bioimaging Division<div>Lawrence Berkeley National Laboratory<br>1 Cyclotron Rd., Bldg. 33R0345<br>Berkeley, CA 94720</div></div></div></div></div></div></div></div></div></div></div>
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