diff --git a/.gitignore b/.gitignore
index af50a6d1f7da5..9f35ea2461b7f 100644
--- a/.gitignore
+++ b/.gitignore
@@ -130,6 +130,12 @@ sklearn/svm/libsvm.py
 sklearn/svm/libsvm_sparse.py
 sklearn/svm/liblinear.py
 
+sklearn/manifold/isomap.py
+sklearn/manifold/locally_linear.py
+sklearn/manifold/mds.py
+sklearn/manifold/spectral_embedding_.py
+sklearn/manifold/t_sne.py
+
 sklearn/semi_supervised/label_propagation.py
 
 sklearn/preprocessing/data.py
diff --git a/sklearn/_build_utils/deprecated_modules.py b/sklearn/_build_utils/deprecated_modules.py
index a16d3603395fc..4730623d4e19f 100644
--- a/sklearn/_build_utils/deprecated_modules.py
+++ b/sklearn/_build_utils/deprecated_modules.py
@@ -86,6 +86,14 @@
      'set_verbosity_wrap'),
     ('_liblinear', 'sklearn.svm.liblinear', 'sklearn.svm', 'train_wrap'),
 
+    ('_isomap', 'sklearn.manifold.isomap', 'sklearn.manifold', 'Isomap'),
+    ('_locally_linear', 'sklearn.manifold.locally_linear', 'sklearn.manifold',
+     'LocallyLinearEmbedding'),
+    ('_mds', 'sklearn.manifold.mds', 'sklearn.manifold', 'MDS'),
+    ('_spectral_embedding_', 'sklearn.manifold.spectral_embedding_',
+     'sklearn.manifold', 'SpectralEmbedding'),
+    ('_t_sne', 'sklearn.manifold.t_sne', 'sklearn.manifold', 'TSNE')
+
     ('_label_propagation', 'sklearn.semi_supervised.label_propagation',
      'sklearn.semi_supervised', 'LabelPropagation'),
 
diff --git a/sklearn/manifold/__init__.py b/sklearn/manifold/__init__.py
index 12ee523f548d2..fdb26a2ca330e 100644
--- a/sklearn/manifold/__init__.py
+++ b/sklearn/manifold/__init__.py
@@ -2,11 +2,11 @@
 The :mod:`sklearn.manifold` module implements data embedding techniques.
 """
 
-from .locally_linear import locally_linear_embedding, LocallyLinearEmbedding
-from .isomap import Isomap
-from .mds import MDS, smacof
-from .spectral_embedding_ import SpectralEmbedding, spectral_embedding
-from .t_sne import TSNE
+from ._locally_linear import locally_linear_embedding, LocallyLinearEmbedding
+from ._isomap import Isomap
+from ._mds import MDS, smacof
+from ._spectral_embedding_ import SpectralEmbedding, spectral_embedding
+from ._t_sne import TSNE
 
 __all__ = ['locally_linear_embedding', 'LocallyLinearEmbedding', 'Isomap',
            'MDS', 'smacof', 'SpectralEmbedding', 'spectral_embedding', "TSNE"]
diff --git a/sklearn/manifold/isomap.py b/sklearn/manifold/_isomap.py
similarity index 100%
rename from sklearn/manifold/isomap.py
rename to sklearn/manifold/_isomap.py
diff --git a/sklearn/manifold/locally_linear.py b/sklearn/manifold/_locally_linear.py
similarity index 100%
rename from sklearn/manifold/locally_linear.py
rename to sklearn/manifold/_locally_linear.py
diff --git a/sklearn/manifold/mds.py b/sklearn/manifold/_mds.py
similarity index 100%
rename from sklearn/manifold/mds.py
rename to sklearn/manifold/_mds.py
diff --git a/sklearn/manifold/spectral_embedding_.py b/sklearn/manifold/_spectral_embedding_.py
similarity index 100%
rename from sklearn/manifold/spectral_embedding_.py
rename to sklearn/manifold/_spectral_embedding_.py
diff --git a/sklearn/manifold/t_sne.py b/sklearn/manifold/_t_sne.py
similarity index 100%
rename from sklearn/manifold/t_sne.py
rename to sklearn/manifold/_t_sne.py
diff --git a/sklearn/manifold/tests/test_locally_linear.py b/sklearn/manifold/tests/test_locally_linear.py
index ea1edcd80111d..f01e52810751c 100644
--- a/sklearn/manifold/tests/test_locally_linear.py
+++ b/sklearn/manifold/tests/test_locally_linear.py
@@ -6,7 +6,7 @@
 import pytest
 
 from sklearn import neighbors, manifold
-from sklearn.manifold.locally_linear import barycenter_kneighbors_graph
+from sklearn.manifold._locally_linear import barycenter_kneighbors_graph
 from sklearn.utils.testing import ignore_warnings
 from sklearn.utils.testing import assert_raise_message
 
diff --git a/sklearn/manifold/tests/test_spectral_embedding.py b/sklearn/manifold/tests/test_spectral_embedding.py
index a1d790c699a16..8461fdf436d7e 100644
--- a/sklearn/manifold/tests/test_spectral_embedding.py
+++ b/sklearn/manifold/tests/test_spectral_embedding.py
@@ -6,9 +6,9 @@
 from scipy.sparse import csgraph
 from scipy.linalg import eigh
 
-from sklearn.manifold.spectral_embedding_ import SpectralEmbedding
-from sklearn.manifold.spectral_embedding_ import _graph_is_connected
-from sklearn.manifold.spectral_embedding_ import _graph_connected_component
+from sklearn.manifold import SpectralEmbedding
+from sklearn.manifold._spectral_embedding_ import _graph_is_connected
+from sklearn.manifold._spectral_embedding_ import _graph_connected_component
 from sklearn.manifold import spectral_embedding
 from sklearn.metrics.pairwise import rbf_kernel
 from sklearn.metrics import normalized_mutual_info_score
diff --git a/sklearn/manifold/tests/test_t_sne.py b/sklearn/manifold/tests/test_t_sne.py
index 8d29f33b6867a..34a14574764d6 100644
--- a/sklearn/manifold/tests/test_t_sne.py
+++ b/sklearn/manifold/tests/test_t_sne.py
@@ -14,13 +14,13 @@
 from sklearn.utils.testing import assert_array_almost_equal
 from sklearn.utils.testing import skip_if_32bit
 from sklearn.utils import check_random_state
-from sklearn.manifold.t_sne import _joint_probabilities
-from sklearn.manifold.t_sne import _joint_probabilities_nn
-from sklearn.manifold.t_sne import _kl_divergence
-from sklearn.manifold.t_sne import _kl_divergence_bh
-from sklearn.manifold.t_sne import _gradient_descent
-from sklearn.manifold.t_sne import trustworthiness
-from sklearn.manifold.t_sne import TSNE
+from sklearn.manifold._t_sne import _joint_probabilities
+from sklearn.manifold._t_sne import _joint_probabilities_nn
+from sklearn.manifold._t_sne import _kl_divergence
+from sklearn.manifold._t_sne import _kl_divergence_bh
+from sklearn.manifold._t_sne import _gradient_descent
+from sklearn.manifold._t_sne import trustworthiness
+from sklearn.manifold import TSNE
 from sklearn.manifold import _barnes_hut_tsne
 from sklearn.manifold._utils import _binary_search_perplexity
 from sklearn.datasets import make_blobs