diff --git a/README.md b/README.md
index 1790bf18..e4ba7a40 100644
--- a/README.md
+++ b/README.md
@@ -165,7 +165,7 @@ cd ../mehari
 cargo run --release -- \
     -v \
     db create txs \
-        --path-out /tmp/txs-out.bin \
+        --path-out /tmp/txs-out.bin.zst \
         --path-cdot-json ../cdot-0.2.12.ensembl.grch37_grch38.json.gz \
         --path-cdot-json ../cdot-0.2.12.refseq.grch37_grch38.json.gz \
         --path-seqrepo-instance ../hgvs-rs-data/seqrepo-data/master/master
diff --git a/docs/db_build.md b/docs/db_build.md
index 91675dc6..d56d3345 100644
--- a/docs/db_build.md
+++ b/docs/db_build.md
@@ -143,7 +143,7 @@ You can build the transcript database protocolbuffers binary using the following
 
 ```text
 $ mehari db create txs \
-    --path-out output/b37/txs.bin \
+    --path-out output/db/grch37/txs.bin.zst \
     \
     --path-seqrepo-instance path/to/seqrepo-data/master \
     \
@@ -158,7 +158,7 @@ $ mehari db create txs \
 You will have to build the transcript database for each genome release that you want and manually specify the release to `--genome-release`.
 For GRCh38, simply use `--genome-release grch38`.
 
-You can enable compression by using the suffix `.gz` for gzip compression and `.zstd` for zstandard compression.
+You can enable compression by using the suffix `.gz` for gzip compression and `.zst` for zstandard compression.
 
 # Building ClinVar Database
 
@@ -166,7 +166,7 @@ This assumes that you have converted a recent ClinVar XML file to TSV using [cli
 
 ```
 $ mehari db create seqvar-clinvar \
-    --path-output-db ~/Data/mehari/db/seqvars/grch37/clinvar \
+    --path-output-db ~/Data/mehari/db/grch37/seqsvars/clinvar \
     --path-clinvar-tsv path/to/clinvar_seqvars.b37.tsv.gz
 ```
 
diff --git a/src/annotate/seqvars/csq.rs b/src/annotate/seqvars/csq.rs
index cebb2cc2..b6956336 100644
--- a/src/annotate/seqvars/csq.rs
+++ b/src/annotate/seqvars/csq.rs
@@ -702,7 +702,7 @@ mod test {
 
     #[test]
     fn annotate_snv_brca1_one_variant() -> Result<(), anyhow::Error> {
-        let tx_path = "tests/data/annotate/db/seqvars/grch37/txs.bin";
+        let tx_path = "tests/data/annotate/db/grch37/txs.bin.zst";
         let tx_db = load_tx_db(tx_path)?;
         let provider = Rc::new(MehariProvider::new(tx_db, Assembly::Grch37p10));
 
@@ -829,7 +829,7 @@ mod test {
     }
 
     fn annotate_vars(path_tsv: &str, txs: &[String]) -> Result<(), anyhow::Error> {
-        let tx_path = "tests/data/annotate/db/seqvars/grch37/txs.bin";
+        let tx_path = "tests/data/annotate/db/grch37/txs.bin.zst";
         let tx_db = load_tx_db(tx_path)?;
         let provider = Rc::new(MehariProvider::new(tx_db, Assembly::Grch37p10));
         let predictor = ConsequencePredictor::new(provider, Assembly::Grch37p10);
diff --git a/src/annotate/seqvars/mod.rs b/src/annotate/seqvars/mod.rs
index d12eb00f..84b190b4 100644
--- a/src/annotate/seqvars/mod.rs
+++ b/src/annotate/seqvars/mod.rs
@@ -105,7 +105,7 @@ pub struct PathOutput {
     pub path_output_vcf: Option<String>,
 
     /// Path to the output TSV file (for import into VarFish).
-    #[arg(long, requires = "path-input-ped")]
+    #[arg(long)]
     pub path_output_tsv: Option<String>,
 }
 
@@ -489,7 +489,7 @@ pub fn load_tx_db(tx_path: &str) -> Result<TxSeqDatabase, anyhow::Error> {
         .map_err(|e| anyhow!("failed to open file {}: {}", tx_path, e))?;
     let mut reader: Box<dyn Read> = if tx_path.ends_with(".gz") {
         Box::new(flate2::read::MultiGzDecoder::new(file))
-    } else if tx_path.ends_with(".zstd") {
+    } else if tx_path.ends_with(".zst") {
         Box::new(
             zstd::Decoder::new(file)
                 .map_err(|e| anyhow!("failed to open zstd decoder for {}: {}", tx_path, e))?,
@@ -499,11 +499,9 @@ pub fn load_tx_db(tx_path: &str) -> Result<TxSeqDatabase, anyhow::Error> {
     };
 
     // Now read the whole file into a byte buffer.
-    let metadata = std::fs::metadata(tx_path)
-        .map_err(|e| anyhow!("failed to get metadata for {}: {}", tx_path, e))?;
-    let mut buffer = vec![0; metadata.len() as usize];
+    let mut buffer = Vec::new();
     reader
-        .read(&mut buffer)
+        .read_to_end(&mut buffer)
         .map_err(|e| anyhow!("failed to read file {}: {}", tx_path, e))?;
 
     // Deserialize the buffer with prost.
@@ -1398,7 +1396,7 @@ fn run_with_writer(writer: &mut dyn AnnotatedVcfWriter, args: &Args) -> Result<(
     // Open the frequency RocksDB database in read only mode.
     tracing::info!("Opening frequency database");
     let rocksdb_path = format!(
-        "{}/seqvars/{}/freqs",
+        "{}/{}/seqvars/freqs",
         &args.path_db,
         path_component(assembly)
     );
@@ -1418,7 +1416,7 @@ fn run_with_writer(writer: &mut dyn AnnotatedVcfWriter, args: &Args) -> Result<(
     // Open the ClinVar RocksDB database in read only mode.
     tracing::info!("Opening ClinVar database");
     let rocksdb_path = format!(
-        "{}/seqvars/{}/clinvar",
+        "{}/{}/seqvars/clinvar",
         &args.path_db,
         path_component(assembly)
     );
@@ -1436,7 +1434,7 @@ fn run_with_writer(writer: &mut dyn AnnotatedVcfWriter, args: &Args) -> Result<(
     // Open the serialized transcripts.
     tracing::info!("Opening transcript database");
     let tx_db = load_tx_db(&format!(
-        "{}/seqvars/{}/txs.bin",
+        "{}/{}/txs.bin.zst",
         &args.path_db,
         path_component(assembly)
     ))?;
diff --git a/src/annotate/strucvars/mod.rs b/src/annotate/strucvars/mod.rs
index 80419709..5dd434c4 100644
--- a/src/annotate/strucvars/mod.rs
+++ b/src/annotate/strucvars/mod.rs
@@ -2591,7 +2591,7 @@ fn run_with_writer(
     let file_date = args
         .file_date
         .as_ref()
-        .map(|v| v.clone())
+        .cloned()
         .unwrap_or(Utc::now().date_naive().format("%Y%m%d").to_string());
     let header_out = vcf_header::build(
         args.genome_release
@@ -2787,7 +2787,6 @@ mod test {
     use rstest::rstest;
     use std::fs::File;
 
-    use chrono::NaiveDate;
     use clap_verbosity_flag::Verbosity;
     use hgvs::static_data::Assembly;
     use linked_hash_map::LinkedHashMap;
diff --git a/src/db/create/txs/mod.rs b/src/db/create/txs/mod.rs
index 7530a0c8..b27ef889 100644
--- a/src/db/create/txs/mod.rs
+++ b/src/db/create/txs/mod.rs
@@ -481,7 +481,7 @@ fn build_protobuf(
             file,
             flate2::Compression::default(),
         ))
-    } else if path_out.ends_with(".zstd") {
+    } else if path_out.ends_with(".zst") {
         Box::new(zstd::Encoder::new(file, 0).map_err(|e| {
             anyhow!(
                 "failed to open zstd enoder for {}: {}",
@@ -856,7 +856,7 @@ pub mod test {
             verbose: Verbosity::new(0, 1),
         };
         let args = Args {
-            path_out: tmp_dir.join("out.bin"),
+            path_out: tmp_dir.join("out.bin.zst"),
             path_cdot_json: vec![PathBuf::from(
                 "tests/data/db/create/txs/cdot-0.2.12.refseq.grch37_grch38.brca1_opa1.json",
             )],
diff --git a/src/verify/seqvars.rs b/src/verify/seqvars.rs
index a65f1507..da461401 100644
--- a/src/verify/seqvars.rs
+++ b/src/verify/seqvars.rs
@@ -120,7 +120,7 @@ pub fn run(_common: &crate::common::Args, args: &Args) -> Result<(), anyhow::Err
     // Read the serialized transcripts.
     tracing::info!("Opening transcript database");
     let tx_db = load_tx_db(&format!(
-        "{}/seqvars/{}/txs.bin",
+        "{}/{}/txs.bin.zst",
         &args.path_db,
         path_component(assembly)
     ))?;
diff --git a/tests/data/annotate/db/grch37/bootstrap.sh b/tests/data/annotate/db/grch37/bootstrap.sh
new file mode 100644
index 00000000..b2457a5f
--- /dev/null
+++ b/tests/data/annotate/db/grch37/bootstrap.sh
@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:1865e5575504e4f004ba02d666515d79a8eccfd7f61cfa66d6b486bc249aa33e
+size 442
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/000012.log b/tests/data/annotate/db/grch37/seqvars/clinvar/000012.log
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/000012.log
rename to tests/data/annotate/db/grch37/seqvars/clinvar/000012.log
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/000013.sst b/tests/data/annotate/db/grch37/seqvars/clinvar/000013.sst
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/000013.sst
rename to tests/data/annotate/db/grch37/seqvars/clinvar/000013.sst
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/000014.sst b/tests/data/annotate/db/grch37/seqvars/clinvar/000014.sst
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/000014.sst
rename to tests/data/annotate/db/grch37/seqvars/clinvar/000014.sst
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/CURRENT b/tests/data/annotate/db/grch37/seqvars/clinvar/CURRENT
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/CURRENT
rename to tests/data/annotate/db/grch37/seqvars/clinvar/CURRENT
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/IDENTITY b/tests/data/annotate/db/grch37/seqvars/clinvar/IDENTITY
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/IDENTITY
rename to tests/data/annotate/db/grch37/seqvars/clinvar/IDENTITY
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/LOCK b/tests/data/annotate/db/grch37/seqvars/clinvar/LOCK
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/LOCK
rename to tests/data/annotate/db/grch37/seqvars/clinvar/LOCK
diff --git a/tests/data/annotate/db/grch37/seqvars/clinvar/LOG b/tests/data/annotate/db/grch37/seqvars/clinvar/LOG
new file mode 100644
index 00000000..e6ebbda2
--- /dev/null
+++ b/tests/data/annotate/db/grch37/seqvars/clinvar/LOG
@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:8059e237679e071f583e988e16f284346f61c0c4931d132beed8e378e512622b
+size 55676
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/MANIFEST-000005 b/tests/data/annotate/db/grch37/seqvars/clinvar/MANIFEST-000005
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/MANIFEST-000005
rename to tests/data/annotate/db/grch37/seqvars/clinvar/MANIFEST-000005
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/OPTIONS-000009 b/tests/data/annotate/db/grch37/seqvars/clinvar/OPTIONS-000009
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/OPTIONS-000009
rename to tests/data/annotate/db/grch37/seqvars/clinvar/OPTIONS-000009
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/OPTIONS-000011 b/tests/data/annotate/db/grch37/seqvars/clinvar/OPTIONS-000011
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/clinvar/OPTIONS-000011
rename to tests/data/annotate/db/grch37/seqvars/clinvar/OPTIONS-000011
diff --git a/tests/data/annotate/db/seqvars/grch37/freqs b/tests/data/annotate/db/grch37/seqvars/freqs
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/freqs
rename to tests/data/annotate/db/grch37/seqvars/freqs
diff --git a/tests/data/annotate/db/grch37/txs.bin.zst b/tests/data/annotate/db/grch37/txs.bin.zst
new file mode 100644
index 00000000..3888b219
--- /dev/null
+++ b/tests/data/annotate/db/grch37/txs.bin.zst
@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:850ada15b1fdfcb89cad96093583b34786d684ced7ba8d9cd977a8f05fab7879
+size 8556
diff --git a/tests/data/annotate/db/seqvars/grch37/txs.bin.report b/tests/data/annotate/db/grch37/txs.bin.zst.report
similarity index 100%
rename from tests/data/annotate/db/seqvars/grch37/txs.bin.report
rename to tests/data/annotate/db/grch37/txs.bin.zst.report
diff --git a/tests/data/annotate/db/seqvars/grch37/bootstrap.sh b/tests/data/annotate/db/seqvars/grch37/bootstrap.sh
deleted file mode 100644
index 47ac944f..00000000
--- a/tests/data/annotate/db/seqvars/grch37/bootstrap.sh
+++ /dev/null
@@ -1,19 +0,0 @@
-# Extract transcripts for BRCA1 from the GRCh37 reference genome
-
-cargo \
-    run \
-    --release \
-    -- \
-    db \
-    create \
-    txs \
-    --path-out \
-    tests/data/annotate/db/seqvars/grch37/txs.bin \
-    --path-cdot-json \
-    ../cdot-0.2.12.refseq.grch37_grch38.json \
-    --path-seqrepo-instance \
-    ../hgvs-rs-data/seqrepo-data/master/master \
-    --genome-release \
-    grch37 \
-    --gene-symbols BRCA1 \
-    --gene-symbols OPA1
diff --git a/tests/data/annotate/db/seqvars/grch37/clinvar/LOG b/tests/data/annotate/db/seqvars/grch37/clinvar/LOG
deleted file mode 100644
index 5e673761..00000000
--- a/tests/data/annotate/db/seqvars/grch37/clinvar/LOG
+++ /dev/null
@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
-oid sha256:9fe51512c988c1c1e729c9c92b259d6b604ee0c767286c29c3e6408201bbcb2e
-size 55685
diff --git a/tests/data/annotate/db/seqvars/grch37/txs.bin b/tests/data/annotate/db/seqvars/grch37/txs.bin
deleted file mode 100644
index 6f69b8b1..00000000
--- a/tests/data/annotate/db/seqvars/grch37/txs.bin
+++ /dev/null
@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
-oid sha256:fe1da10491ab4027ce9a389021b06d7977447ade7f2754d3d073c3981acbd532
-size 99309