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 Rv3322c/-:

update plot	correlation	link to info on gene
Rv2287/yjcE	(cc=0.5032)	info on Rv2287/yjcE
Rv3749c/-	(cc=0.5009)	info on Rv3749c/-
Rv1356c/-	(cc=0.4972)	info on Rv1356c/-
Rv1366/-	(cc=0.4906)	info on Rv1366/-
Rv0649/fabD2	(cc=0.488)	info on Rv0649/fabD2
Rv1703c/-	(cc=0.4862)	info on Rv1703c/-
Rv0226c/-	(cc=0.4846)	info on Rv0226c/-
Rv1531/-	(cc=0.4686)	info on Rv1531/-
Rv1367c/-	(cc=0.4683)	info on Rv1367c/-
Rv3056/dinP	(cc=0.4657)	info on Rv3056/dinP

Correlation of Rv3322c/- with Rv3749c/-

Normalized LFCs for Rv3322c/-:
(description and provenance of datasets)

	Rv3322c/-	Rv3749c/-
Fe_supp_jason_reseq	-0.672	0.253
low_pH_jason_reseq	-1.981	-0.602
NO_jason_reseq	-0.459	0.026
B6_jason_reseq	-0.711	0.466
MHCII_jason_reseq	0.159	0.688
Isoniazid02	0.298	-0.227
Rifampicin4	-0.376	0.062
Ethambutol3	-0.229	0.136
Meropenem3	0.261	-0.904
Vancomycin16	0.337	-0.464
Rv2680_day32	-2.622	-0.008
H37Rv_KO_MarP	0.673	0.429
hypoxia_3wks	0.295	-0.1
hypoxia_6wks	-0.395	-0.098
glycerol	0.445	-2.336
cholesterol	0.496	-1.456
AJ	0.145	0.225
Bibs02	-0.121	-0.535
Bibs02c	1.126	0.779
BL6	0.151	-0.411
BL6a	0.042	0.532
BXD01	-0.014	-0.171
BXD010	-0.289	0.558
BXD011	-0.546	-0.294
BXD03	0.111	-0.054
BXD04	-0.571	-0.348
BXD05	-0.376	0.359
BXD06	-0.318	-0.489
BXD07	0.232	-0.021
BXD08	-0.409	-0.206
BXD09	-1.079	-0.101
CAST	-1.026	0.354
CCcont	0.329	-0.373
DS01	0.193	-0.101
DS02	0.607	-0.487
DS04	0.342	-0.521
DS0c	-0.668	0.193
GP01	-0.78	1.065
GP02	1.469	-0.271
GP0c	0.374	-0.257
NOD	-0.174	0.716
NZO	1.124	0.077
PWK	-0.661	0.175
H37Rv_KO_CtpC	-1.284	-0.755
H37Rv_KO_CtpD	-0.464	-0.643
H37Rv_KO_Rv1272	-0.455	-0.229
H37Rv_KO_SugABC	0.883	-0.009
H37Rv_KO_MbtN	-1.609	-1.433
Trans05	0.744	-0.542
macrophage_unactivated	0.451	-1.386
IL1	-2.658	-5.09
Rapamycin	-2.51	-4.944
Tcell	0.274	2.366
GMCSF	-1.114	-4.267
IFNab	-1.022	-4.734
IFNg	-2.29	-4.479
IFNg_GMCSF1	-0.575	-5.144
Rv1432_day32	-0.296	0.077
Rv1565c_day32	0.264	0.18
secA2_input	0.553	-0.941
delta_Rv3594	-0.018	-0.393
delta_Rv3717	-0.191	-0.339
delta_Rv3811	-0.391	-0.082
delta_Rv0954	-0.416	0.141
PonA1	-1.392	-0.029
EccD1_KO	0.5	-0.428
EspI_KO	0.73	-0.034
PE35_KO	-0.079	-0.604
PPE68_KO	-0.31	-0.877
glycerol2	0.726	0.901
lignocerate	0.678	0.793
oleate	0.591	0.906
phosphatidylcholine	0.735	1.018
acetate	0.18	0.318
glucAc	0.223	0.22
Rv0950ko	0.118	0.356
Rv1096ko	-0.29	0.425
Rv3684ko	0.416	-0.016
delta_otsA_trehalose	0.667	1.092