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 Rv1471/trxB1:

update plot	correlation	link to info on gene
Rv2544/lppB	(cc=0.6987)	info on Rv2544/lppB
Rv0495c/-	(cc=0.6096)	info on Rv0495c/-
Rv1987/-	(cc=0.5731)	info on Rv1987/-
Rv2078/-	(cc=0.569)	info on Rv2078/-
Rv0590A/-	(cc=0.5689)	info on Rv0590A/-
Rv0109/PE_PGRS1	(cc=0.5578)	info on Rv0109/PE_PGRS1
Rv2281/pitB	(cc=0.5545)	info on Rv2281/pitB
Rv0055/rpsR1	(cc=0.5436)	info on Rv0055/rpsR1
Rv1604/impA	(cc=0.5435)	info on Rv1604/impA
Rv3287c/rsbW	(cc=0.5432)	info on Rv3287c/rsbW

Correlation of Rv1471/trxB1 with Rv2544/lppB

Normalized LFCs for Rv1471/trxB1:
(description and provenance of datasets)

	Rv1471/trxB1	Rv2544/lppB
Fe_supp_jason_reseq	-1.092	1.127
low_pH_jason_reseq	-0.035	-1.017
NO_jason_reseq	-0.242	0.173
B6_jason_reseq	-1.221	0.024
MHCII_jason_reseq	-2.743	-1.788
Isoniazid02	0.432	0.0
Rifampicin4	-1.313	-0.883
Ethambutol3	0.133	-0.353
Meropenem3	-0.465	-0.391
Vancomycin16	0.34	0.799
Rv2680_day32	0.343	0.305
H37Rv_KO_MarP	-0.665	-0.246
hypoxia_3wks	-1.188	-0.813
hypoxia_6wks	1.232	-0.115
glycerol	2.319	0.06
cholesterol	0.532	-0.184
AJ	1.743	-0.071
Bibs02	-0.158	0.437
Bibs02c	-0.446	1.105
BL6	3.592	1.373
BL6a	2.91	1.738
BXD01	0.812	1.583
BXD010	2.067	1.615
BXD011	2.63	1.618
BXD03	2.354	1.844
BXD04	2.435	1.957
BXD05	3.599	1.846
BXD06	2.481	1.135
BXD07	2.685	1.284
BXD08	2.983	1.041
BXD09	2.301	1.435
CAST	1.605	-0.908
CCcont	2.453	1.744
DS01	1.324	0.137
DS02	0.961	-0.276
DS04	-0.932	0.554
DS0c	-0.613	-0.275
GP01	-1.378	-0.745
GP02	-1.161	-0.444
GP0c	-1.684	-0.83
NOD	-0.26	-0.361
NZO	1.604	-0.253
PWK	2.083	1.172
H37Rv_KO_CtpC	3.258	2.292
H37Rv_KO_CtpD	1.628	1.467
H37Rv_KO_Rv1272	3.897	1.852
H37Rv_KO_SugABC	1.335	1.493
H37Rv_KO_MbtN	-0.408	2.949
Trans05	1.81	1.969
macrophage_unactivated	-0.211	0.249
IL1	1.124	0.178
Rapamycin	0.328	0.061
Tcell	0.961	0.56
GMCSF	-1.188	0.309
IFNab	0.432	0.296
IFNg	1.457	0.828
IFNg_GMCSF1	0.0	1.901
Rv1432_day32	0.0	0.035
Rv1565c_day32	1.087	1.311
secA2_input	-0.266	-0.606
delta_Rv3594	0.089	1.201
delta_Rv3717	2.29	0.055
delta_Rv3811	2.127	0.86
delta_Rv0954	1.957	0.727
PonA1	-0.608	0.075
EccD1_KO	-0.062	0.059
EspI_KO	0.305	0.485
PE35_KO	1.003	0.855
PPE68_KO	1.328	0.841
glycerol2	3.213	2.159
lignocerate	3.899	2.678
oleate	0.688	-1.239
phosphatidylcholine	3.039	2.189
acetate	5.878	2.909
glucAc	4.496	2.554
Rv0950ko	1.481	0.121
Rv1096ko	0.552	-0.712
Rv3684ko	-0.354	-0.517
delta_otsA_trehalose	-0.27	-0.318