diff --git a/Jenkinsfile-redo-solr b/Jenkinsfile-redo-solr
index dba905eb..a707af5b 100644
--- a/Jenkinsfile-redo-solr
+++ b/Jenkinsfile-redo-solr
@@ -17,6 +17,16 @@ pipeline {
                                 description: 'Re-run denormalization step',
                                 name: 'RUN_CLOSURIZER'
                             ),
+                            booleanParam(
+                                defaultValue: false,
+                                description: 'Load Solr',
+                                name: 'SOLR'
+                            ),
+                            booleanParam(
+                                defaultValue: false,
+                                description: 'Load sqlite',
+                                name: 'SQLITE'
+                            ),
                             booleanParam(
                                 defaultValue: false,
                                 description: 'Upload to bucket',
@@ -69,11 +79,21 @@ pipeline {
             }
         }
         stage('solr') {
+            when {
+                expression {
+                   return params.SOLR
+                }
+            }
             steps {
                 sh 'poetry run ingest solr'
             }
         }
         stage('sqlite') {
+            when {
+                expression {
+                   return params.SQLITE
+                }
+            }
             steps {
                 sh 'poetry run ingest sqlite'
             }
diff --git a/docs/Sources/Phenio.md b/docs/Sources/Phenio.md
new file mode 100644
index 00000000..059b7f5a
--- /dev/null
+++ b/docs/Sources/Phenio.md
@@ -0,0 +1,33 @@
+# PHENIO
+
+PHENIO is an ontology for accessing and comparing knowledge concerning phenotypes across species and genetic backgrounds.
+
+Phenio provides the "semantic backbone" of the Monarch Knowledge Graph.  
+Designed as an application ontology, PHENIO integrates a variety of ontological concepts, in particular
+the "core entities" in the Monarch Knowledge Graph (KG), including diseases, phenotypes and anatomical entities.
+
+Note that while forming an integral part of the Monarch KG, PHENIO does not have a "Koza Ingest" configuration like all the other sources, 
+but is instead ingested into Monarch KG straight via a `OWL -> obographs -> KGX` transform.
+
+## Sources
+
+PHENIO integrates several different types of hierarchical relationships from a variety of sources.
+
+These include:
+* Chemical entities and relationships from [CHEBI](https://www.ebi.ac.uk/chebi/)
+* Disease entities and relationships from [MONDO](https://mondo.monarchinitiative.org/)
+* Abnormal phenotypes of humans ([HPO](https://hpo.jax.org/app/)), mouse and other mammalian species ([MPO](https://www.informatics.jax.org/vocab/mp_ontology)), the nematode worm Caenorhabditis elegans ([WBBT](http://www.obofoundry.org/ontology/wbphenotype.html)), and zebrafish ([ZFA](http://www.obofoundry.org/ontology/zfa.html)).
+
+[A full list of files used in the construction of PHENIO is available here.](https://monarch-initiative.github.io/phenio/odk-workflows/RepositoryFileStructure/)
+
+## More Information
+For more information, see:
+
+- [NCATS Translater Phenio Overview](https://github.com/NCATSTranslator/Translator-All/wiki/phenio)
+- [KGHub Phenio](https://github.com/Knowledge-Graph-Hub/kg-phenio)  
+- [Monarch Phenio](https://github.com/monarch-initiative/phenio)
+- [Documentation](https://monarch-initiative.github.io/phenio/)
+
+## Source Code
+
+https://github.com/monarch-initiative/phenio
diff --git a/poetry.lock b/poetry.lock
index 242415e2..62d29411 100644
--- a/poetry.lock
+++ b/poetry.lock
@@ -181,17 +181,17 @@ stringcase = ">=1.2.0,<2.0.0"
 
 [[package]]
 name = "boto3"
-version = "1.28.70"
+version = "1.28.77"
 description = "The AWS SDK for Python"
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "boto3-1.28.70-py3-none-any.whl", hash = "sha256:22ec3b54801c81746657827c7b1c4a3b2e4cfa7c21be3b96218d32e9390ee5eb"},
-    {file = "boto3-1.28.70.tar.gz", hash = "sha256:89002e1d8411c7c54110f9f8fc4a11d57d6d7977c0cb4ba064887ca5d4c788f7"},
+    {file = "boto3-1.28.77-py3-none-any.whl", hash = "sha256:c0899e54df362bea0ae329da59b0a00e4be5e220e99dc764802ed83cdfc4285c"},
+    {file = "boto3-1.28.77.tar.gz", hash = "sha256:1a47e5b8faea527bb2a40d0cf58faf0d09b5a46cf5658e2c5729479af20c96b8"},
 ]
 
 [package.dependencies]
-botocore = ">=1.31.70,<1.32.0"
+botocore = ">=1.31.77,<1.32.0"
 jmespath = ">=0.7.1,<2.0.0"
 s3transfer = ">=0.7.0,<0.8.0"
 
@@ -200,13 +200,13 @@ crt = ["botocore[crt] (>=1.21.0,<2.0a0)"]
 
 [[package]]
 name = "botocore"
-version = "1.31.70"
+version = "1.31.77"
 description = "Low-level, data-driven core of boto 3."
 optional = false
 python-versions = ">= 3.7"
 files = [
-    {file = "botocore-1.31.70-py3-none-any.whl", hash = "sha256:049bbf526c95b6169f59617a5ff1b0061cb7a0e44992b8c27c6955832b383988"},
-    {file = "botocore-1.31.70.tar.gz", hash = "sha256:5f49def4ec2e4216dd0195d23d9811027d02ee6c8a37b031e2b2fe38e8c77ddc"},
+    {file = "botocore-1.31.77-py3-none-any.whl", hash = "sha256:4c5c9562b5d1fb8355314ddf37142edf3f6abd7526f4a68cc1b6cd79bdda48ec"},
+    {file = "botocore-1.31.77.tar.gz", hash = "sha256:509168151f8a0e1b8296031a7fc7822d59d027865d3baa86917682b311a74d26"},
 ]
 
 [package.dependencies]
@@ -282,101 +282,101 @@ files = [
 
 [[package]]
 name = "charset-normalizer"
-version = "3.3.1"
+version = "3.3.2"
 description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet."
 optional = false
 python-versions = ">=3.7.0"
 files = [
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-    {file = "charset_normalizer-3.3.1-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:352a88c3df0d1fa886562384b86f9a9e27563d4704ee0e9d56ec6fcd270ea690"},
-    {file = "charset_normalizer-3.3.1-cp310-cp310-macosx_11_0_arm64.whl", hash = "sha256:223b4d54561c01048f657fa6ce41461d5ad8ff128b9678cfe8b2ecd951e3f8a2"},
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 ]
 
 [[package]]
@@ -395,18 +395,18 @@ colorama = {version = "*", markers = "platform_system == \"Windows\""}
 
 [[package]]
 name = "closurizer"
-version = "0.3.2"
+version = "0.4.1"
 description = "Add closure expansion fields to kgx files following the Golr pattern"
 optional = false
 python-versions = ">=3.8,<4.0"
 files = [
-    {file = "closurizer-0.3.2-py3-none-any.whl", hash = "sha256:656b5a3275b3d88e7a9ce91fae5dd43cd044b73f4b5842d32e0da98c256c7a99"},
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+    {file = "closurizer-0.4.1-py3-none-any.whl", hash = "sha256:b25d03d017b098c0d11a1238df2807d4cba8af23af9b4eafcd48888b60fb91dd"},
+    {file = "closurizer-0.4.1.tar.gz", hash = "sha256:20d99424b1cc036c5c4328cb14848f7ca9806a1c21a14b9f4bd9231a2d091660"},
 ]
 
 [package.dependencies]
 click = ">=8,<9"
-petl = ">=1.7.10,<2.0.0"
+duckdb = ">=0.9.1,<0.10.0"
 SQLAlchemy = ">=1.4.37,<2.0.0"
 
 [[package]]
@@ -452,13 +452,13 @@ test = ["codacy-coverage", "coveralls", "dict_hash", "pytest", "pytest-cov", "ra
 
 [[package]]
 name = "curies"
-version = "0.6.6"
+version = "0.7.0"
 description = "Idiomatic conversion between URIs and compact URIs (CURIEs)."
 optional = false
 python-versions = ">=3.8"
 files = [
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+    {file = "curies-0.7.0.tar.gz", hash = "sha256:6ce4b3b6202f7fed9ccef4b6b91fc6a13de233774fc39088e64bc676b1a4a48e"},
 ]
 
 [package.dependencies]
@@ -559,20 +559,68 @@ files = [
     {file = "docutils-0.18.1.tar.gz", hash = "sha256:679987caf361a7539d76e584cbeddc311e3aee937877c87346f31debc63e9d06"},
 ]
 
+[[package]]
+name = "duckdb"
+version = "0.9.1"
+description = "DuckDB embedded database"
+optional = false
+python-versions = ">=3.7.0"
+files = [
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+    {file = "duckdb-0.9.1-cp39-cp39-musllinux_1_1_x86_64.whl", hash = "sha256:4f27f5e94c47df6c4ccddf18e3277b7464eea3db07356d2c4bf033b5c88359b8"},
+    {file = "duckdb-0.9.1-cp39-cp39-win32.whl", hash = "sha256:d43cd7e6f783006b59dcc5e40fcf157d21ee3d0c8dfced35278091209e9974d7"},
+    {file = "duckdb-0.9.1-cp39-cp39-win_amd64.whl", hash = "sha256:e666795887d9cf1d6b6f6cbb9d487270680e5ff6205ebc54b2308151f13b8cff"},
+    {file = "duckdb-0.9.1.tar.gz", hash = "sha256:603a878746015a3f2363a65eb48bcbec816261b6ee8d71eee53061117f6eef9d"},
+]
+
 [[package]]
 name = "elastic-transport"
-version = "8.4.1"
+version = "8.10.0"
 description = "Transport classes and utilities shared among Python Elastic client libraries"
 optional = false
 python-versions = ">=3.6"
 files = [
-    {file = "elastic-transport-8.4.1.tar.gz", hash = "sha256:e5548997113c5d9566c9a1a51ed67bce50a4871bc0e44b692166461279e4167e"},
-    {file = "elastic_transport-8.4.1-py3-none-any.whl", hash = "sha256:c718ce40e8217b6045604961463c10da69a152dda07af4e25b3feae8d7965fc0"},
+    {file = "elastic-transport-8.10.0.tar.gz", hash = "sha256:ca51d08a4d16611701a57fb70592dbc7cb68c40fef4ac1becfe4aea100fe82ef"},
+    {file = "elastic_transport-8.10.0-py3-none-any.whl", hash = "sha256:e73ac3c7ad4e9209436207143d797d3f6b62a399a34d2729e069e44c9ea2cadc"},
 ]
 
 [package.dependencies]
 certifi = "*"
-urllib3 = ">=1.26.2,<2"
+urllib3 = ">=1.26.2,<3"
 
 [package.extras]
 develop = ["aiohttp", "furo", "mock", "pytest", "pytest-asyncio", "pytest-cov", "pytest-httpserver", "pytest-mock", "requests", "sphinx (>2)", "sphinx-autodoc-typehints", "trustme"]
@@ -622,19 +670,19 @@ test = ["pytest (>=6)"]
 
 [[package]]
 name = "filelock"
-version = "3.12.4"
+version = "3.13.1"
 description = "A platform independent file lock."
 optional = false
 python-versions = ">=3.8"
 files = [
-    {file = "filelock-3.12.4-py3-none-any.whl", hash = "sha256:08c21d87ded6e2b9da6728c3dff51baf1dcecf973b768ef35bcbc3447edb9ad4"},
-    {file = "filelock-3.12.4.tar.gz", hash = "sha256:2e6f249f1f3654291606e046b09f1fd5eac39b360664c27f5aad072012f8bcbd"},
+    {file = "filelock-3.13.1-py3-none-any.whl", hash = "sha256:57dbda9b35157b05fb3e58ee91448612eb674172fab98ee235ccb0b5bee19a1c"},
+    {file = "filelock-3.13.1.tar.gz", hash = "sha256:521f5f56c50f8426f5e03ad3b281b490a87ef15bc6c526f168290f0c7148d44e"},
 ]
 
 [package.extras]
-docs = ["furo (>=2023.7.26)", "sphinx (>=7.1.2)", "sphinx-autodoc-typehints (>=1.24)"]
-testing = ["covdefaults (>=2.3)", "coverage (>=7.3)", "diff-cover (>=7.7)", "pytest (>=7.4)", "pytest-cov (>=4.1)", "pytest-mock (>=3.11.1)", "pytest-timeout (>=2.1)"]
-typing = ["typing-extensions (>=4.7.1)"]
+docs = ["furo (>=2023.9.10)", "sphinx (>=7.2.6)", "sphinx-autodoc-typehints (>=1.24)"]
+testing = ["covdefaults (>=2.3)", "coverage (>=7.3.2)", "diff-cover (>=8)", "pytest (>=7.4.3)", "pytest-cov (>=4.1)", "pytest-mock (>=3.12)", "pytest-timeout (>=2.2)"]
+typing = ["typing-extensions (>=4.8)"]
 
 [[package]]
 name = "flake8"
@@ -722,13 +770,13 @@ grpcio-gcp = ["grpcio-gcp (>=0.2.2,<1.0.dev0)"]
 
 [[package]]
 name = "google-auth"
-version = "2.23.3"
+version = "2.23.4"
 description = "Google Authentication Library"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "google-auth-2.23.3.tar.gz", hash = "sha256:6864247895eea5d13b9c57c9e03abb49cb94ce2dc7c58e91cba3248c7477c9e3"},
-    {file = "google_auth-2.23.3-py2.py3-none-any.whl", hash = "sha256:a8f4608e65c244ead9e0538f181a96c6e11199ec114d41f1d7b1bffa96937bda"},
+    {file = "google-auth-2.23.4.tar.gz", hash = "sha256:79905d6b1652187def79d491d6e23d0cbb3a21d3c7ba0dbaa9c8a01906b13ff3"},
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 ]
 
 [package.dependencies]
@@ -763,13 +811,13 @@ grpc = ["grpcio (>=1.38.0,<2.0dev)"]
 
 [[package]]
 name = "google-cloud-storage"
-version = "2.12.0"
+version = "2.13.0"
 description = "Google Cloud Storage API client library"
 optional = false
 python-versions = ">=3.7"
 files = [
-    {file = "google-cloud-storage-2.12.0.tar.gz", hash = "sha256:57c0bcda2f5e11f008a155d8636d8381d5abab46b58e0cae0e46dd5e595e6b46"},
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+    {file = "google-cloud-storage-2.13.0.tar.gz", hash = "sha256:f62dc4c7b6cd4360d072e3deb28035fbdad491ac3d9b0b1815a12daea10f37c7"},
+    {file = "google_cloud_storage-2.13.0-py2.py3-none-any.whl", hash = "sha256:ab0bf2e1780a1b74cf17fccb13788070b729f50c252f0c94ada2aae0ca95437d"},
 ]
 
 [package.dependencies]
@@ -989,13 +1037,13 @@ test = ["faulthandler", "objgraph", "psutil"]
 
 [[package]]
 name = "griffe"
-version = "0.36.7"
+version = "0.36.9"
 description = "Signatures for entire Python programs. Extract the structure, the frame, the skeleton of your project, to generate API documentation or find breaking changes in your API."
 optional = false
 python-versions = ">=3.8"
 files = [
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 ]
 
 [package.dependencies]
@@ -1341,13 +1389,13 @@ files = [
 
 [[package]]
 name = "jsonschema"
-version = "4.19.1"
+version = "4.19.2"
 description = "An implementation of JSON Schema validation for Python"
 optional = false
 python-versions = ">=3.8"
 files = [
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 ]
 
 [package.dependencies]
@@ -1588,7 +1636,7 @@ pysolr = "^3.9.0"
 type = "git"
 url = "https://github.com/linkml/linkml-solr.git"
 reference = "top_class"
-resolved_reference = "4b898c7c7a46af06d05cde51ed276d21f9c52f3c"
+resolved_reference = "747ec7772752ee596638c94e54269b65804cb0a9"
 
 [[package]]
 name = "linkml-validator"
@@ -1631,13 +1679,13 @@ dev = ["Sphinx (==7.2.5)", "colorama (==0.4.5)", "colorama (==0.4.6)", "exceptio
 
 [[package]]
 name = "markdown"
-version = "3.5"
+version = "3.5.1"
 description = "Python implementation of John Gruber's Markdown."
 optional = false
 python-versions = ">=3.8"
 files = [
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 ]
 
 [package.extras]
@@ -1941,13 +1989,13 @@ pytz = "*"
 
 [[package]]
 name = "networkx"
-version = "3.2"
+version = "3.2.1"
 description = "Python package for creating and manipulating graphs and networks"
 optional = false
 python-versions = ">=3.9"
 files = [
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 ]
 
 [package.extras]
@@ -2125,32 +2173,6 @@ files = [
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 ]
 
-[[package]]
-name = "petl"
-version = "1.7.14"
-description = "A Python package for extracting, transforming and loading tables of data."
-optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
-files = [
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-
-[package.extras]
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-bcolz = ["bcolz (>=1.2.1)"]
-db = ["SQLAlchemy (>=1.3.6,<2.0)"]
-hdf5 = ["cython (>=0.29.13)", "numexpr (>=2.6.9)", "numpy (>=1.16.4)", "tables (>=3.5.2)"]
-http = ["aiohttp (>=3.6.2)", "requests"]
-interval = ["intervaltree (>=3.0.2)"]
-numpy = ["numpy (>=1.16.4)"]
-pandas = ["pandas (>=0.24.2)"]
-remote = ["fsspec (>=0.7.4)"]
-smb = ["smbprotocol (>=1.0.1)"]
-whoosh = ["whoosh"]
-xls = ["xlrd (>=2.0.1)", "xlwt (>=1.3.0)"]
-xlsx = ["openpyxl (>=2.6.2)"]
-xpath = ["lxml (>=4.4.0)"]
-
 [[package]]
 name = "platformdirs"
 version = "3.11.0"
@@ -2244,24 +2266,22 @@ files = [
 
 [[package]]
 name = "protobuf"
-version = "4.24.4"
+version = "4.25.0"
 description = ""
 optional = false
-python-versions = ">=3.7"
+python-versions = ">=3.8"
 files = [
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 ]
 
 [[package]]
@@ -2941,13 +2961,13 @@ pyasn1 = ">=0.1.3"
 
 [[package]]
 name = "ruamel-yaml"
-version = "0.18.2"
+version = "0.18.4"
 description = "ruamel.yaml is a YAML parser/emitter that supports roundtrip preservation of comments, seq/map flow style, and map key order"
 optional = false
 python-versions = ">=3"
 files = [
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 ]
 
 [package.dependencies]
@@ -3310,66 +3330,43 @@ test = ["pytest"]
 
 [[package]]
 name = "sqlalchemy"
-version = "1.4.49"
+version = "1.4.50"
 description = "Database Abstraction Library"
 optional = false
 python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7"
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+    {file = "SQLAlchemy-1.4.50.tar.gz", hash = "sha256:3b97ddf509fc21e10b09403b5219b06c5b558b27fc2453150274fa4e70707dbf"},
 ]
 
 [package.dependencies]
 greenlet = {version = "!=0.4.17", markers = "python_version >= \"3\" and (platform_machine == \"aarch64\" or platform_machine == \"ppc64le\" or platform_machine == \"x86_64\" or platform_machine == \"amd64\" or platform_machine == \"AMD64\" or platform_machine == \"win32\" or platform_machine == \"WIN32\")"}
 
 [package.extras]
-aiomysql = ["aiomysql", "greenlet (!=0.4.17)"]
+aiomysql = ["aiomysql (>=0.2.0)", "greenlet (!=0.4.17)"]
 aiosqlite = ["aiosqlite", "greenlet (!=0.4.17)", "typing-extensions (!=3.10.0.1)"]
 asyncio = ["greenlet (!=0.4.17)"]
 asyncmy = ["asyncmy (>=0.2.3,!=0.2.4)", "greenlet (!=0.4.17)"]
@@ -3564,19 +3561,20 @@ dev = ["flake8", "flake8-annotations", "flake8-bandit", "flake8-bugbear", "flake
 
 [[package]]
 name = "urllib3"
-version = "1.26.18"
+version = "2.0.7"
 description = "HTTP library with thread-safe connection pooling, file post, and more."
 optional = false
-python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*"
+python-versions = ">=3.7"
 files = [
-    {file = "urllib3-1.26.18-py2.py3-none-any.whl", hash = "sha256:34b97092d7e0a3a8cf7cd10e386f401b3737364026c45e622aa02903dffe0f07"},
-    {file = "urllib3-1.26.18.tar.gz", hash = "sha256:f8ecc1bba5667413457c529ab955bf8c67b45db799d159066261719e328580a0"},
+    {file = "urllib3-2.0.7-py3-none-any.whl", hash = "sha256:fdb6d215c776278489906c2f8916e6e7d4f5a9b602ccbcfdf7f016fc8da0596e"},
+    {file = "urllib3-2.0.7.tar.gz", hash = "sha256:c97dfde1f7bd43a71c8d2a58e369e9b2bf692d1334ea9f9cae55add7d0dd0f84"},
 ]
 
 [package.extras]
-brotli = ["brotli (==1.0.9)", "brotli (>=1.0.9)", "brotlicffi (>=0.8.0)", "brotlipy (>=0.6.0)"]
-secure = ["certifi", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "ipaddress", "pyOpenSSL (>=0.14)", "urllib3-secure-extra"]
-socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"]
+brotli = ["brotli (>=1.0.9)", "brotlicffi (>=0.8.0)"]
+secure = ["certifi", "cryptography (>=1.9)", "idna (>=2.0.0)", "pyopenssl (>=17.1.0)", "urllib3-secure-extra"]
+socks = ["pysocks (>=1.5.6,!=1.5.7,<2.0)"]
+zstd = ["zstandard (>=0.18.0)"]
 
 [[package]]
 name = "validators"
@@ -3800,4 +3798,4 @@ testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "p
 [metadata]
 lock-version = "2.0"
 python-versions = ">=3.10,<3.12"
-content-hash = "7e1d62346d6ae00dc50adda8e668e86ea50c4e119a06662ba230beccf563c023"
+content-hash = "e76f86f1363146aada6a07ddfb1eb52bd4302f7fdfdce079b8deefa407cfc651"
diff --git a/pyproject.toml b/pyproject.toml
index 52dd5508..7e08f482 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -19,7 +19,7 @@ python = ">=3.10,<3.12"
 kghub-downloader = "^0.3.2"
 koza = "^0.3.0"
 cat-merge = ">=0.2.0"
-closurizer = "^0.3.2"
+closurizer = "0.4.1"
 kgx = ">=2.1"
 multi-indexer = "0.0.5"
 botocore = "^1.31"
diff --git a/scripts/add_association_copyfields.sh b/scripts/add_association_copyfields.sh
index 596ea92b..0bf9cf58 100755
--- a/scripts/add_association_copyfields.sh
+++ b/scripts/add_association_copyfields.sh
@@ -36,7 +36,7 @@ curl -X POST -H 'Content-type:application/json' --data-binary '{
 
 # now add copyfields declarations for subject_label, subject_closure_label, object_label, object_closure_label
 
-for field in subject_label subject_closure_label subject_taxon subject_taxon_label predicate object_label object_closure_label object_taxon object_taxon_label primary_knowledge_source qualifier_label onset_qualifier_label frequency_qualifier_label sex_qualifier_label
+for field in subject_label subject_closure_label subject_taxon subject_taxon_label predicate object_label object_closure_label object_taxon object_taxon_label primary_knowledge_source qualifiers_label onset_qualifier_label frequency_qualifier_label sex_qualifier_label
 do
   curl -X POST -H 'Content-type:application/json' --data-binary "{
   \"add-copy-field\": {
diff --git a/scripts/after_download.sh b/scripts/after_download.sh
index 66c35194..f1da15a8 100755
--- a/scripts/after_download.sh
+++ b/scripts/after_download.sh
@@ -1,7 +1,7 @@
 #!/bin/sh
 
 # Make a simple text file of all the gene IDs in Alliance
-zcat data/alliance/BGI_*.gz | jq '.data[].basicGeneticEntity.primaryId' | gzip > data/alliance/alliance_gene_ids.txt.gz
+zcat data/alliance/BGI_*.gz | jq '.data[].basicGeneticEntity.primaryId' | pigz > data/alliance/alliance_gene_ids.txt.gz
 
 # Make an id, name map of DDPHENO terms
 sqlite3 -cmd ".mode tabs" -cmd ".headers on" data/dictybase/ddpheno.db "select subject as id, value as name from rdfs_label_statement where predicate = 'rdfs:label' and subject like 'DDPHENO:%'" > data/dictybase/ddpheno.tsv
diff --git a/scripts/load_solr.sh b/scripts/load_solr.sh
index b31ce7a7..7b2e617c 100755
--- a/scripts/load_solr.sh
+++ b/scripts/load_solr.sh
@@ -12,16 +12,18 @@ if test -f "output/monarch-kg-denormalized-edges.tsv.gz"; then
 fi
 
 echo "Download the schema from monarch-py"
-# This replaces poetry run monarch schema > model.yaml
-curl -O https://raw.githubusercontent.com/monarch-initiative/monarch-app/v0.15.8/backend/src/monarch_py/datamodels/model.yaml
-curl -O https://raw.githubusercontent.com/monarch-initiative/monarch-app/v0.15.8/backend/src/monarch_py/datamodels/similarity.yaml
+# This replaces poetry run monarch schema > model.yaml and just awkwardly pulls from a github raw link
+
+# temporarily retrieve from a branch that has the sssom changes, they can't be merged until the new build runs
+curl -O https://raw.githubusercontent.com/monarch-initiative/monarch-app/schema-sssom-and-grouping/backend/src/monarch_py/datamodels/model.yaml
+curl -O https://raw.githubusercontent.com/monarch-initiative/monarch-app/schema-sssom-and-grouping/backend/src/monarch_py/datamodels/similarity.yaml
 
 echo "Starting the server"
 poetry run lsolr start-server
 sleep 30
 
 echo "Adding cores"
-poetry run lsolr add-cores entity association
+poetry run lsolr add-cores entity association sssom
 sleep 10
 
 # todo: ideally, this will live in linkml-solr
@@ -37,12 +39,24 @@ echo "Adding association schema"
 poetry run lsolr create-schema -C association -s model.yaml -t Association
 sleep 5
 
+echo "Adding sssom schema"
+poetry run lsolr create-schema -C sssom -s model.yaml -t Mapping
+sleep 5
+
 # todo: this also should live in linkml-solr, and copy-fields should be based on the schema
 echo "Add dynamic fields and copy fields declarations"
 scripts/add_entity_copyfields.sh
 scripts/add_association_copyfields.sh
 sleep 5
 
+# todo: this should probably happen after associations, but putting it first for testing
+echo "Loading SSSOM mappings"
+grep -v "^#" data/monarch/mondo.sssom.tsv > headless.mondo.sssom.tsv
+# todo: copy the mappings to output/mappings as part of an earlier step
+poetry run lsolr bulkload -C sssom -s model.yaml headless.mondo.sssom.tsv
+poetry run lsolr bulkload -C sssom -s model.yaml data/monarch/gene_mappings.tsv
+poetry run lsolr bulkload -C sssom -s model.yaml data/monarch/chebi-mesh.biomappings.sssom.tsv
+
 echo "Loading entities"
 poetry run lsolr bulkload -C entity -s model.yaml output/monarch-kg_nodes.tsv
 
@@ -64,4 +78,4 @@ chmod -R a+rX solr-data
 
 tar czf solr.tar.gz -C solr-data data
 mv solr.tar.gz output/
-gzip --force output/monarch-kg-denormalized-edges.tsv
+pigz --force output/monarch-kg-denormalized-edges.tsv
diff --git a/scripts/load_sqlite.sh b/scripts/load_sqlite.sh
index d427dfb0..fd7a582b 100755
--- a/scripts/load_sqlite.sh
+++ b/scripts/load_sqlite.sh
@@ -27,8 +27,8 @@ sqlite3 output/monarch-kg.db "create index if not exists denormalized_edges_obje
 
 echo "Cleaning up..."
 rm output/monarch-kg_*.tsv
-gzip --force output/qc/monarch-kg-dangling-edges.tsv
-gzip --force output/monarch-kg-denormalized-edges.tsv
+pigz --force output/qc/monarch-kg-dangling-edges.tsv
+pigz --force output/monarch-kg-denormalized-edges.tsv
 
 echo "Populate phenio db term_association..."
 cp data/monarch/phenio.db.gz output/phenio.db.gz
@@ -36,5 +36,5 @@ gunzip output/phenio.db.gz
 sqlite3 -cmd "attach 'monarch-kg.db' as monarch" phenio.db "insert into term_association (id, subject, predicate, object, evidence_type, publication, source) select id, subject, predicate, object, has_evidence as evidence_type, publications as publication, primary_knowledge_source as source from monarch.edges where predicate = 'biolink:has_phenotype' and negated <> 'True'"
 
 echo "Compressing databases"
-gzip --force output/phenio.db
-gzip --force output/monarch-kg.db
+pigz --force output/phenio.db
+pigz --force output/monarch-kg.db
diff --git a/scripts/update_latest_release.sh b/scripts/update_latest_release.sh
index 66c81aba..9ab68d1a 100755
--- a/scripts/update_latest_release.sh
+++ b/scripts/update_latest_release.sh
@@ -3,12 +3,12 @@
 # This script will push a local copy of the Solr, Sqlite and denormalized edge artifacts up to all
 # all copies of the bucket for a given release. It needs to be run from the root of the repo
 
-RELEASE=$(gsutil ls gs://data-public-monarchinitiative/monarch-kg-dev/latest/ | grep -Eo "(\d){4}-(\d){2}-(\d){2}")
+export RELEASE=$(gsutil ls gs://data-public-monarchinitiative/monarch-kg-dev/latest/ | grep -o '[0-9]\{4\}-[0-9]\{2\}-[0-9]\{2\}')
 echo "Updating Solr, SQLite and denormalized edge files for $RELEASE"
 
 gsutil cp output/monarch-kg.db.gz gs://monarch-archive/monarch-kg-dev/$RELEASE/
 gsutil cp output/monarch-kg-denormalized-edges.tsv.gz gs://monarch-archive/monarch-kg-dev/$RELEASE/
 gsutil cp output/solr.tar.gz gs://monarch-archive/monarch-kg-dev/$RELEASE/
 
-gsutil cp -r "gs://monarch-archive/monarch-kg-dev/$RELEASE/*" gs://data-public-monarchinitiative/monarch-kg-dev/$RELEASE/
-gsutil cp -r "gs://monarch-archive/monarch-kg-dev/$RELEASE/*" gs://monarch-archive/monarch-kg/latest/
+gsutil cp "gs://monarch-archive/monarch-kg-dev/$RELEASE/*.gz" gs://data-public-monarchinitiative/monarch-kg-dev/$RELEASE/
+gsutil cp "gs://monarch-archive/monarch-kg-dev/$RELEASE/*.gz" gs://data-public-monarchinitiative/monarch-kg-dev/latest/
diff --git a/src/monarch_ingest/cli_utils.py b/src/monarch_ingest/cli_utils.py
index 1c66da01..bd77a70c 100644
--- a/src/monarch_ingest/cli_utils.py
+++ b/src/monarch_ingest/cli_utils.py
@@ -320,14 +320,19 @@ def apply_closure(
     output_dir: str = OUTPUT_DIR,
 ):
     output_file = f"{output_dir}/{name}-denormalized-edges.tsv"
-    add_closure(
-        kg_archive=f"{output_dir}/{name}.tar.gz",
-        closure_file=closure_file,
-        output_file=output_file,
-        fields=["subject", "object", "frequency_qualifier", "onset_qualifier", "sex_qualifier", "stage_qualifier"],
-        evidence_fields=["has_evidence", "publications"],
-    )
-    sh.gzip(output_file, force=True)
+    add_closure(kg_archive=f"{output_dir}/{name}.tar.gz",
+                closure_file=closure_file,
+                output_file=output_file,
+                fields=['subject',
+                        'object',
+                        'qualifiers',
+                        'frequency_qualifier',
+                        'onset_qualifier',
+                        'sex_qualifier',
+                        'stage_qualifier'],
+                evidence_fields=['has_evidence', 'publications'],
+                grouping_fields=['subject', 'negated', 'predicate', 'object'])
+    sh.pigz(output_file, force=True)
 
 
 def load_sqlite():