TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1522c/mmpL12:

update plot	correlation	link to info on gene
Rv0743c/-	(cc=0.6213)	info on Rv0743c/-
Rv0473/-	(cc=0.5856)	info on Rv0473/-
Rv1431/-	(cc=0.5518)	info on Rv1431/-
Rv2044c/-	(cc=0.5196)	info on Rv2044c/-
Rv3823c/mmpL8	(cc=0.487)	info on Rv3823c/mmpL8
Rv3050c/-	(cc=0.4746)	info on Rv3050c/-
Rv0645c/mmaA1	(cc=0.4718)	info on Rv0645c/mmaA1
Rv0148/-	(cc=0.4671)	info on Rv0148/-
Rv1399c/nlhH	(cc=0.4664)	info on Rv1399c/nlhH
Rv0932c/pstS2	(cc=0.4654)	info on Rv0932c/pstS2

Correlation of Rv1522c/mmpL12 with Rv0148/-

Normalized LFCs for Rv1522c/mmpL12:
(description and provenance of datasets)

	Rv1522c/mmpL12	Rv0148/-
Fe_supp_jason_reseq	0.155	-0.439
low_pH_jason_reseq	-0.094	0.214
NO_jason_reseq	0.142	0.323
B6_jason_reseq	-0.722	-0.393
MHCII_jason_reseq	-0.391	-0.333
Isoniazid02	-0.998	-0.854
Rifampicin4	-0.617	-0.439
Ethambutol3	-0.761	-0.233
Meropenem3	-0.375	-0.242
Vancomycin16	-0.621	-0.393
Rv2680_day32	0.562	1.023
H37Rv_KO_MarP	0.102	-0.075
hypoxia_3wks	0.112	0.064
hypoxia_6wks	0.115	-0.104
glycerol	-0.527	-0.069
cholesterol	-0.503	-0.057
AJ	-0.245	-0.034
Bibs02	0.152	0.633
Bibs02c	0.045	0.553
BL6	0.062	-0.024
BL6a	0.402	0.581
BXD01	0.241	0.789
BXD010	0.157	0.328
BXD011	0.139	0.562
BXD03	0.029	0.372
BXD04	0.103	0.772
BXD05	0.409	0.39
BXD06	0.434	0.713
BXD07	0.495	0.611
BXD08	0.137	0.331
BXD09	0.078	0.496
CAST	0.0	0.422
CCcont	0.221	-0.247
DS01	0.051	0.424
DS02	-0.08	0.715
DS04	0.162	0.349
DS0c	-0.162	0.02
GP01	0.594	0.634
GP02	0.705	0.699
GP0c	-0.138	0.805
NOD	0.648	0.913
NZO	-0.133	0.724
PWK	-0.178	0.665
H37Rv_KO_CtpC	0.405	0.12
H37Rv_KO_CtpD	0.945	0.447
H37Rv_KO_Rv1272	1.056	0.785
H37Rv_KO_SugABC	0.413	0.592
H37Rv_KO_MbtN	0.515	0.364
Trans05	0.717	0.628
macrophage_unactivated	0.051	-0.035
IL1	-0.098	0.0
Rapamycin	0.049	-0.034
Tcell	-0.218	0.091
GMCSF	0.209	0.51
IFNab	-0.305	0.181
IFNg	-0.021	0.088
IFNg_GMCSF1	-0.182	0.418
Rv1432_day32	3.323	0.535
Rv1565c_day32	0.439	0.256
secA2_input	0.204	0.543
delta_Rv3594	0.171	0.076
delta_Rv3717	-0.024	0.184
delta_Rv3811	0.406	0.336
delta_Rv0954	-0.116	-0.145
PonA1	-0.128	-0.484
EccD1_KO	0.589	-0.283
EspI_KO	-0.165	0.191
PE35_KO	0.4	-0.088
PPE68_KO	0.438	-0.291
glycerol2	-0.13	0.214
lignocerate	0.054	-0.518
oleate	-0.286	0.34
phosphatidylcholine	0.049	-0.301
acetate	-0.123	-0.447
glucAc	0.232	-0.897
Rv0950ko	0.0	0.154
Rv1096ko	-0.893	-0.709
Rv3684ko	-0.54	-0.154
delta_otsA_trehalose	-0.397	-1.369