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 Rv0647c/-:

update plot	correlation	link to info on gene
Rv0473/-	(cc=0.5503)	info on Rv0473/-
Rv0742/PE_PGRS8	(cc=0.5395)	info on Rv0742/PE_PGRS8
Rv1128c/-	(cc=0.5296)	info on Rv1128c/-
Rv1787/PPE25	(cc=0.5248)	info on Rv1787/PPE25
Rv0148/-	(cc=0.5141)	info on Rv0148/-
Rv3020c/esxS	(cc=0.5091)	info on Rv3020c/esxS
Rv2584c/apt	(cc=0.501)	info on Rv2584c/apt
Rv3840/-	(cc=0.4988)	info on Rv3840/-
Rv0844c/narL	(cc=0.4885)	info on Rv0844c/narL
Rv1622c/cydB	(cc=0.4879)	info on Rv1622c/cydB

Correlation of Rv0647c/- with Rv0844c/narL

Normalized LFCs for Rv0647c/-:
(description and provenance of datasets)

	Rv0647c/-	Rv0844c/narL
Fe_supp_jason_reseq	-0.965	-0.821
low_pH_jason_reseq	-0.893	-0.885
NO_jason_reseq	0.263	-0.798
B6_jason_reseq	-0.411	-1.434
MHCII_jason_reseq	-1.082	-1.717
Isoniazid02	-0.678	-0.1
Rifampicin4	0.176	0.208
Ethambutol3	-0.283	1.001
Meropenem3	0.68	0.189
Vancomycin16	0.377	-0.342
Rv2680_day32	1.282	0.584
H37Rv_KO_MarP	0.083	0.126
hypoxia_3wks	0.594	-0.167
hypoxia_6wks	0.593	-0.334
glycerol	0.401	1.508
cholesterol	-0.545	0.542
AJ	-0.57	0.509
Bibs02	0.789	-0.719
Bibs02c	-0.45	-0.943
BL6	-0.232	1.836
BL6a	0.27	1.204
BXD01	0.828	0.829
BXD010	-0.096	0.842
BXD011	1.056	1.187
BXD03	0.805	1.108
BXD04	0.494	1.469
BXD05	1.346	0.771
BXD06	1.106	0.426
BXD07	0.382	0.737
BXD08	2.15	1.32
BXD09	0.25	1.096
CAST	-0.174	0.282
CCcont	-0.977	1.334
DS01	0.166	0.224
DS02	-0.468	-0.191
DS04	0.424	-0.17
DS0c	0.431	-0.358
GP01	2.005	1.085
GP02	1.541	2.145
GP0c	1.998	1.153
NOD	-1.181	-0.884
NZO	0.14	0.337
PWK	0.75	-0.254
H37Rv_KO_CtpC	-0.45	1.893
H37Rv_KO_CtpD	1.267	1.565
H37Rv_KO_Rv1272	0.586	2.107
H37Rv_KO_SugABC	-0.901	1.083
H37Rv_KO_MbtN	1.806	1.304
Trans05	0.665	1.91
macrophage_unactivated	2.25	0.707
IL1	0.955	0.507
Rapamycin	1.182	0.319
Tcell	1.254	0.417
GMCSF	2.131	1.127
IFNab	0.774	0.753
IFNg	0.861	0.214
IFNg_GMCSF1	1.012	0.277
Rv1432_day32	1.669	0.675
Rv1565c_day32	0.359	0.215
secA2_input	0.606	-0.549
delta_Rv3594	-1.41	-0.912
delta_Rv3717	-0.077	-0.745
delta_Rv3811	-0.578	-1.019
delta_Rv0954	-1.143	-0.574
PonA1	-1.249	-0.895
EccD1_KO	-0.099	-0.03
EspI_KO	-0.536	0.876
PE35_KO	-0.359	0.528
PPE68_KO	-0.394	0.627
glycerol2	-0.319	0.659
lignocerate	-0.229	0.951
oleate	0.525	1.168
phosphatidylcholine	-0.319	0.808
acetate	0.223	-0.136
glucAc	-0.569	0.086
Rv0950ko	-0.603	-0.075
Rv1096ko	-0.793	0.169
Rv3684ko	-1.189	-0.429
delta_otsA_trehalose	-2.372	-1.055