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 Rv1833c/-:

update plot	correlation	link to info on gene
Rv2657c/-	(cc=0.6)	info on Rv2657c/-
Rv2426c/-	(cc=0.5899)	info on Rv2426c/-
Rv2474c/-	(cc=0.572)	info on Rv2474c/-
Rv1070c/echA8	(cc=0.5651)	info on Rv1070c/echA8
Rv1378c/-	(cc=0.5527)	info on Rv1378c/-
Rv3395c/-	(cc=0.5516)	info on Rv3395c/-
Rv1731/gabD2	(cc=0.5414)	info on Rv1731/gabD2
Rv3538/-	(cc=0.5337)	info on Rv3538/-
Rv3344c/PE_PGRS49	(cc=0.5288)	info on Rv3344c/PE_PGRS49
Rv1907c/-	(cc=0.5267)	info on Rv1907c/-

Correlation of Rv1833c/- with Rv3344c/PE_PGRS49

Normalized LFCs for Rv1833c/-:
(description and provenance of datasets)

	Rv1833c/-	Rv3344c/PE_PGRS49
Fe_supp_jason_reseq	-0.456	-1.058
low_pH_jason_reseq	-0.502	-1.604
NO_jason_reseq	0.071	-0.845
B6_jason_reseq	-0.689	-0.895
MHCII_jason_reseq	-0.529	-0.171
Isoniazid02	1.359	1.292
Rifampicin4	0.801	0.948
Ethambutol3	2.69	2.134
Meropenem3	1.206	4.472
Vancomycin16	0.464	0.276
Rv2680_day32	-0.806	-0.261
H37Rv_KO_MarP	-0.291	0.505
hypoxia_3wks	-0.877	-0.933
hypoxia_6wks	0.221	-1.357
glycerol	-0.408	2.652
cholesterol	0.541	1.799
AJ	-1.303	1.861
Bibs02	-0.54	0.823
Bibs02c	-0.279	2.53
BL6	-0.346	-0.53
BL6a	-0.509	1.121
BXD01	-0.299	0.89
BXD010	-0.329	-1.192
BXD011	-0.038	-0.762
BXD03	-1.04	0.459
BXD04	-0.648	0.156
BXD05	-0.398	-0.235
BXD06	0.226	-0.621
BXD07	-0.127	0.388
BXD08	-0.446	-0.111
BXD09	-0.457	-0.386
CAST	0.776	0.179
CCcont	-0.427	-0.462
DS01	0.2	-0.488
DS02	0.369	0.113
DS04	-0.242	1.127
DS0c	-0.308	-0.52
GP01	-0.998	0.754
GP02	0.435	0.963
GP0c	0.236	-0.841
NOD	1.29	-0.322
NZO	-0.532	0.344
PWK	-0.396	-0.163
H37Rv_KO_CtpC	-0.344	0.205
H37Rv_KO_CtpD	0.292	1.136
H37Rv_KO_Rv1272	0.139	2.135
H37Rv_KO_SugABC	-0.732	0.101
H37Rv_KO_MbtN	1.985	1.843
Trans05	-0.241	0.964
macrophage_unactivated	-0.862	-0.9
IL1	-1.255	-2.856
Rapamycin	-0.706	-3.182
Tcell	-1.03	-3.138
GMCSF	-0.43	-1.127
IFNab	-0.868	-3.622
IFNg	-1.486	-2.771
IFNg_GMCSF1	-0.386	-1.668
Rv1432_day32	-0.153	1.031
Rv1565c_day32	0.13	-1.579
secA2_input	-1.086	0.02
delta_Rv3594	0.716	4.285
delta_Rv3717	0.443	2.782
delta_Rv3811	0.915	2.231
delta_Rv0954	0.756	1.371
PonA1	1.118	2.185
EccD1_KO	0.039	0.132
EspI_KO	-0.533	0.302
PE35_KO	-0.344	0.117
PPE68_KO	0.31	0.064
glycerol2	0.224	1.078
lignocerate	1.335	1.432
oleate	-0.123	0.951
phosphatidylcholine	0.668	1.032
acetate	2.091	0.086
glucAc	1.638	1.829
Rv0950ko	0.259	0.76
Rv1096ko	0.383	0.956
Rv3684ko	0.996	1.965
delta_otsA_trehalose	0.44	0.654