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 Rv2722/-:

update plot	correlation	link to info on gene
Rv1871c/-	(cc=0.6053)	info on Rv1871c/-
Rv2977c/thiL	(cc=0.5835)	info on Rv2977c/thiL
Rv2721c/-	(cc=0.583)	info on Rv2721c/-
Rv2929/-	(cc=0.5342)	info on Rv2929/-
Rv1335/cysO	(cc=0.4661)	info on Rv1335/cysO
Rv2038c/-	(cc=0.4641)	info on Rv2038c/-
Rv1616/-	(cc=0.4588)	info on Rv1616/-
Rv1582c/-	(cc=0.4516)	info on Rv1582c/-
Rv1931c/-	(cc=0.4227)	info on Rv1931c/-
Rv0877/-	(cc=0.4213)	info on Rv0877/-

Correlation of Rv2722/- with Rv2038c/-

Normalized LFCs for Rv2722/-:
(description and provenance of datasets)

	Rv2722/-	Rv2038c/-
Fe_supp_jason_reseq	-2.115	-1.699
low_pH_jason_reseq	0.038	-0.127
NO_jason_reseq	2.659	-0.465
B6_jason_reseq	-1.441	-2.64
MHCII_jason_reseq	-2.043	-0.977
Isoniazid02	0.987	0.115
Rifampicin4	2.588	-0.149
Ethambutol3	0.795	-0.067
Meropenem3	0.834	-0.321
Vancomycin16	-0.05	0.21
Rv2680_day32	-2.163	-1.358
H37Rv_KO_MarP	0.296	0.207
hypoxia_3wks	1.435	-0.183
hypoxia_6wks	3.282	1.462
glycerol	-0.75	-1.252
cholesterol	-0.609	-1.217
AJ	-0.514	-0.494
Bibs02	-0.824	-1.537
Bibs02c	-0.174	-0.591
BL6	1.918	1.212
BL6a	0.248	0.106
BXD01	0.472	-0.074
BXD010	1.281	0.34
BXD011	0.514	0.888
BXD03	0.782	0.622
BXD04	0.226	0.612
BXD05	1.563	1.52
BXD06	1.39	0.438
BXD07	0.206	0.731
BXD08	0.378	0.849
BXD09	0.555	0.979
CAST	-0.549	0.184
CCcont	-0.719	0.764
DS01	0.181	-0.936
DS02	-0.31	-1.575
DS04	-1.268	-0.225
DS0c	0.14	-0.251
GP01	1.792	1.204
GP02	0.369	0.544
GP0c	1.513	0.598
NOD	0.521	-0.404
NZO	-0.526	0.306
PWK	-0.094	-0.627
H37Rv_KO_CtpC	0.0	0.087
H37Rv_KO_CtpD	0.959	1.034
H37Rv_KO_Rv1272	-0.695	1.002
H37Rv_KO_SugABC	0.486	0.784
H37Rv_KO_MbtN	1.012	1.145
Trans05	1.203	2.398
macrophage_unactivated	-0.057	-0.246
IL1	0.133	1.397
Rapamycin	-0.172	-0.239
Tcell	-0.573	0.544
GMCSF	-0.251	0.38
IFNab	0.269	0.834
IFNg	-0.668	0.738
IFNg_GMCSF1	1.166	0.93
Rv1432_day32	0.159	-0.614
Rv1565c_day32	0.663	0.096
secA2_input	-1.991	-0.504
delta_Rv3594	-1.358	0.035
delta_Rv3717	-1.748	-0.218
delta_Rv3811	-1.023	0.034
delta_Rv0954	-0.966	-0.864
PonA1	-1.863	-2.363
EccD1_KO	1.003	0.914
EspI_KO	-0.408	-0.257
PE35_KO	1.006	0.187
PPE68_KO	1.062	-0.678
glycerol2	-0.153	0.607
lignocerate	-0.275	1.538
oleate	2.768	-1.418
phosphatidylcholine	-0.734	0.531
acetate	1.327	1.998
glucAc	0.144	1.735
Rv0950ko	-0.525	-1.049
Rv1096ko	-1.282	0.0
Rv3684ko	-0.924	-0.727
delta_otsA_trehalose	0.584	0.087