Ya Chen Email & Phone Number

Cambridge, Ma, Us

Cambridge, Ma, Us

Thousand Oaks, Ca, Us

Currently working on enabling Chemistry Ideation by integrating internal systems with Schrödinger LiveDesignCurrently working on design / implementation of ADEPT (Amgen Design and Engineering for Protein Therapeutics), which enables analysis / design / engineering for antibody as well as generic proteinExtend internal Visual Query Tool (VQT) services to various new modalities. Implemented package that seamlessly made its results available for Spotfire / Pipeline Pilot / other platformsOverhauled company research compound info propagation mechanism, enable substances from various internal registration systems to be readily available in MosaicImplemented integration between CoreLIMS and existing company internal / COTS systems, utilizing Jackson JSON & CoreLIMS APIImplemented new features for Ab Initio (a suite of antibody analysis tool such as viewer, feature finder, alignment, convariance, etc), including positional frequency panel, two flavors of CDR Grafting, file-driven mutant generation, and cystine-clamp generation, etc.Supporting company existing systems, such as Ab Intitio, Large Molecule Registration, Freezer Database, Assay Information Management, Pipeline Pilot protocols, etc.Worked on RG-Mobile, a mobile version of company Research Gateway (RG). Implemented Subscription Manager backend for RGImplemented backend & mid-tier for Merlin version 3. Enabled modality-independent substance support, flexible labware search, utilizing Mosaic SOAP API for labware / compound manipulationWorked on Modality Independent Data Analysis System as key member. Extended existing Assay Data Entry Tool to enable data capture regardless of modalityImplemented PSILO feature for Research Gateway, which enabled querying and viewing for internal and external protein 2D & 3D structure, along with corresponding meta dataEnhanced and supported legacy company applications, such as AKD, TaqMan, FlowCyto Calendar, Charon, etc

New York, New York, Us

Built Request Service. Enables user to submit sequence designs, and gets registered compound numbers back once synthesis passed QA & QC. Provides search and admin features for user to search, watch, or manage submissions. Implemented cron servlets to refresh metadata, check & update status, and send email alert to user with updates.Built OMICS sample loader service as key memeber. Enables user to import internal / external gene expression data, validates & processes user inputs, and then loads them into GeneSpring database for further data mining.Built LMR web service as key memeber. Using novel notation of large molecule sequence, it enables user to design structure, conducts uniqueness checking, and then registers to company. Implemented cron servlets to refresh metadata, check & update status, and re-submit registration if needed.Participated TKR2 development. It serves as central port for all rationale and data available of a given compound or disease.Participated BioLum Ames Image Analysis system development. Enables user to import images, interprets image into data format, allows user to annotate / triage data, and then loads data into database.Built KSS Request Tracking System. Enables researchers to specify KSS assay detail, assists sample logistic users to prepare compounds accordingly, and then notifies bench users to conduct assay. Implemented full search and admin features and email notification for each milestone along workflow.In charge of Pipeline Pilot environment. Develop and deploy protocols for multi-discipline global users, covering complete collection of Pipeline Pilot packages. Administrate Pipeline Pilot Windows and Linux cluster servers.In charge of text mining environment. First in company to build & admin Linguamatics I2E. Built Medline index with customized ontology set. Automated customized indexing / publish process with email notification to users.Administrated local Linux Cluster and SGI servers

Cambridge, Ma, Us

Developed web-based Watson-CDW Data Transfer System, which integrates Watson LIMS with Clinical Data Warehouse to ensure CFR 21 Part 11 compliance.

Cambridge, Ma, Us

Developed web-based Target Validation System as key member. The system integrated with internal and external data sources, and served as central hub for current available information about target of interest.Developed web-based Scientific Finding Capture System, which enables users to upload documents, and conduct (full-text) search across company documents.

Developed web-based TxPLIMS (Transcription Profiling Lab Information Management System) and MxPLIMS (Metabolite Profiling LIMS) as a key member.

Ms, Computer And Information Sciences

Ph D Student, Computer And Information Sciences

Ph D Student, Molecular Biology

Ms, Genetics

Bs, Cell Biology And Genetics

Education record